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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U10806-1
Contig ID Contig-U10806-1
Contig update 2002.12.18
Contig sequence 
>Contig-U10806-1 (Contig-U10806-1Q) /CSM_Contig/Contig-U10806-1Q.Seq.d
AAATCGACAGTATTGTTATCAGATTTATTCAATCGTGAACAAGTGATATG
GATGTTTAAAACTTTTACAACAATTTATGCTCAAGATGAAATTGATGATT
TCCTTTTGAAACAACATTTGATTTTAGGTATTTGTAAAGGTATTGCAATT
TTACAAACACCACCAAATGTTGGCGATAGTAATGCTCATAGTGTTGGTAT
ATTTGAAATGTTGAAATCGGCATTGGATCATCAAAATATCTCTTTACAAG
TTAGTGCATTGGATGGCATACTTTATCTATTGGAAGGTAAAGTCAACAAA
TATATCCAAGGTTCATTACTACAATTCCTTTTCCGTTGGATACCAACTAG
ACTATCAAGTGTACCTTTCCCACCGGTATCATTGACATTACGTGTATTGG
CAACAATGTTTTTAATGATTGAACAGTATAGTAGAGAAGCAGAGGAAACA
TTATTTACAAAACGTGCCGTTACTACATGTATTCAATTGGGTCAACAACA
ATCCACACCTGTACCAATCGTTTATGGTGTTTTCAGAGGTTTGGATCG--
--------AATTCATTGACAGCATTTGAAGGTTCATTCAGTTCAAGTTCT
ATAGAATCACCATTAAACTCTGCATTGGACTCGGGTTATGTCCTCTTTTA
TTATGGATGATAATTATAGTGGTAGTGGTGGTAATTCATTAATCAATGGT
GGTGGTGGTGGTGATCCATTATCATCATTGGATAGACAGAAATTCTCACG
TGTAAATAATATGGAAAAAGTTAAGATGTTATTCGATAAGATTCGTTTAG
TCTCTCATTTCTCATACGAATCTCATGTATTATCAGAGGTATTACCAGTT
GTAATCGTAGATTTATTCCCTTCAGTCGATCAAGTTTTATCCTTTATTTT
AGGTGAATTTTTAAAACAAAGTAAAACAAACTCAAAATTAATGTGTCAAA
TCATTTCAAAGGTTTTCGATTTCTTGGTTGAAAATGATACTTCTGAAAAT
ACAAATCAACATTTAATCAACTATTGGATTATCATTTGTTTACAAAATTT
TTTCCAAATTCAAAATCCAACTCATTGTTTATGGGCTTTAACTTATTTAT
TTTTAACTTCTTCACCAAAAAGATCTTTTAAATTATTGGAATCTGAATTT
GCATCAAAAATTCAAACAAATGAAAAATTGTTTATTATTATAGCATCAGA
ATTTTATTTCAATAAAGAATTATCAAAGGAAAACAAACAATTATTTAAAG
ATTCTTTCTCAAAATTAAAAATTGAACCTTATATATCTTTATTGAAAGTT
ATAAATACTACACAA
Gap gap included
Contig length 1305
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 1326971
End point 1325693
Strand (PLUS/MINUS) MINUS
Number of clones 9
Number of EST 11
Link to clone list U10806
List of clone(s) 

est1=AFD448F,1,549
est2=SLJ759F,179,479
est3=CHS422Z,550,1301
est4=AHO293Z,555,1280
est5=AHJ876Z,557,1268
est6=VHF486Z,575,1267
est7=AFD448Z,599,1295
est8=AHB758Z,622,1278
est9=VHC204Z,650,1280
est10=VHB743Z,661,1282
est11=SLJ759Z,1025,1312
Translated Amino Acid sequence 
KSTVLLSDLFNREQVIWMFKTFTTIYAQDEIDDFLLKQHLILGICKGIAILQTPPNVGDS
NAHSVGIFEMLKSALDHQNISLQVSALDGILYLLEGKVNKYIQGSLLQFLFRWIPTRLSS
VPFPPVSLTLRVLATMFLMIEQYSREAEETLFTKRAVTTCIQLGQQQSTPVPIVYGVFRG
LD---

---NSLTAFEGSFSSSSIESPLNSALDSGYVLFYYG**l*w*ww*finqwwwww*siiii
g*teiltck*ygks*dvir*dsfslsflirisciirgitscnrrfipfsrssfilyfr*i
fktk*nklkinvsnhfkgfrflg*k*yf*kykstfnqlldyhlftkffpnsksnslfmgf
nlfifnfftkkif*iigi*iciknsnk*kivyyysirilfq*riikgkqtii*rfflkik
n*tlyifiesykyyt
Translated Amino Acid sequence (All Frames) 
Frame A:
KSTVLLSDLFNREQVIWMFKTFTTIYAQDEIDDFLLKQHLILGICKGIAILQTPPNVGDS
NAHSVGIFEMLKSALDHQNISLQVSALDGILYLLEGKVNKYIQGSLLQFLFRWIPTRLSS
VPFPPVSLTLRVLATMFLMIEQYSREAEETLFTKRAVTTCIQLGQQQSTPVPIVYGVFRG
LD---

---NSLTAFEGSFSSSSIESPLNSALDSGYVLFYYG**l*w*ww*finqwwwww*siiii
g*teiltck*ygks*dvir*dsfslsflirisciirgitscnrrfipfsrssfilyfr*i
fktk*nklkinvsnhfkgfrflg*k*yf*kykstfnqlldyhlftkffpnsksnslfmgf
nlfifnfftkkif*iigi*iciknsnk*kivyyysirilfq*riikgkqtii*rfflkik
n*tlyifiesykyyt

Frame B:
nrqycyqiysivnk*ygclkllqqfmlkmklmisf*nni*f*vfvkvlqfykhhqmlaiv
mlivlvylkc*nrhwiikislyklvhwmayfiywkvkstniskvhyynsfsvgyqldyqv
ylshryh*hyvywqqcf**lnsivekqrkhylqnvpllhvfnwvnnnphlyqsfmvfsev
wi---

---ih*qhlkvhsvqvl*nhh*tlhwtrvmssfimddnysgsggnslingggggdplssl
drqkfsrvnnmekvkmlfdkirlvshfsyeshvlsevlpvvivdlfpsvdqvlsfilgef
lkqsktnsklmcqiiskvfdflvendtsentnqhlinywiiiclqnffqiqnpthclwal
tylfltsspkrsfkllesefaskiqtneklfiiiasefyfnkelskenkqlfkdsfsklk
iepyisllkvinttq

Frame C:
idsivirfiqs*tsdmdv*nfynnlcsr*n**fpfettfdfryl*rycnftnttkcwr**
cs*cwyi*nveigigsskylfts*cigwhtlsigr*sqqiyprfittipfpldtn*tikc
tfptgiiditcignnvfnd*tv**rsrgniiyktcryymysigsttihtctnrlwcfqrf
gs---

---fidsi*rfiqfkfyritiklciglglcplllwmiiivvvvvih*smvvvvvihyhhw
idrnshv*iiwkklrcysirfv*slishtnlmyyqryyql*s*iyslqsikfyplf*vnf
*nkvkqtqn*cvksfqrfsiswlkmillkiqini*stiglsfvykifskfkiqlivygl*
liyf*llhqkdllnywnlnlhqkfkqmknclll*hqnfisiknyqrktnnylkilsqn*k
lnliyly*kl*ilh
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U10806-1 (Contig-U10806-1Q)
/CSM_Contig/Contig-U10806-1Q.Seq.d
         (1315 letters)

Database: CSM
           6905 sequences; 5,674,871 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U10806-1 (Contig-U10806-1Q) /CSM_Contig/Conti...  1320  0.0
Contig-U08227-1 (Contig-U08227-1Q) /CSM_Contig/Conti...    44  4e-04
Contig-U06733-1 (Contig-U06733-1Q) /CSM_Contig/Conti...    38  0.024
Contig-U12273-1 (Contig-U12273-1Q) /CSM_Contig/Conti...    36  0.093
Contig-U12107-1 (Contig-U12107-1Q) /CSM_Contig/Conti...    36  0.093
Contig-U11919-1 (Contig-U11919-1Q) /CSM_Contig/Conti...    36  0.093
Contig-U10036-1 (Contig-U10036-1Q) /CSM_Contig/Conti...    36  0.093
Contig-U09585-1 (Contig-U09585-1Q) /CSM_Contig/Conti...    36  0.093
Contig-U05714-1 (Contig-U05714-1Q) /CSM_Contig/Conti...    36  0.093
Contig-U06349-1 (Contig-U06349-1Q) /CSM_Contig/Conti...    30  5.7

>Contig-U10806-1 (Contig-U10806-1Q) /CSM_Contig/Contig-U10806-1Q.Seq.d
          Length = 1315

 Score = 1320 bits (666), Expect = 0.0
 Identities = 696/696 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaatcgacagtattgttatcagatttattcaatcgtgaacaagtgatatggatgtttaaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   aaatcgacagtattgttatcagatttattcaatcgtgaacaagtgatatggatgtttaaa 60

                                                                       
Query: 61  acttttacaacaatttatgctcaagatgaaattgatgatttccttttgaaacaacatttg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  acttttacaacaatttatgctcaagatgaaattgatgatttccttttgaaacaacatttg 120

                                                                       
Query: 121 attttaggtatttgtaaaggtattgcaattttacaaacaccaccaaatgttggcgatagt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 attttaggtatttgtaaaggtattgcaattttacaaacaccaccaaatgttggcgatagt 180

                                                                       
Query: 181 aatgctcatagtgttggtatatttgaaatgttgaaatcggcattggatcatcaaaatatc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 aatgctcatagtgttggtatatttgaaatgttgaaatcggcattggatcatcaaaatatc 240

                                                                       
Query: 241 tctttacaagttagtgcattggatggcatactttatctattggaaggtaaagtcaacaaa 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 tctttacaagttagtgcattggatggcatactttatctattggaaggtaaagtcaacaaa 300

                                                                       
Query: 301 tatatccaaggttcattactacaattccttttccgttggataccaactagactatcaagt 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 tatatccaaggttcattactacaattccttttccgttggataccaactagactatcaagt 360

                                                                       
Query: 361 gtacctttcccaccggtatcattgacattacgtgtattggcaacaatgtttttaatgatt 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 gtacctttcccaccggtatcattgacattacgtgtattggcaacaatgtttttaatgatt 420

                                                                       
Query: 421 gaacagtatagtagagaagcagaggaaacattatttacaaaacgtgccgttactacatgt 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 gaacagtatagtagagaagcagaggaaacattatttacaaaacgtgccgttactacatgt 480

                                                                       
Query: 481 attcaattgggtcaacaacaatccacacctgtaccaatcgtttatggtgttttcagaggt 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 attcaattgggtcaacaacaatccacacctgtaccaatcgtttatggtgttttcagaggt 540

                                                                       
Query: 541 ttggatcgnnnnnnnnnnaattcattgacagcatttgaaggttcattcagttcaagttct 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 ttggatcgnnnnnnnnnnaattcattgacagcatttgaaggttcattcagttcaagttct 600

                                                                       
Query: 601 atagaatcaccattaaactctgcattggactcgggttatgtcctcttttattatggatga 660
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601 atagaatcaccattaaactctgcattggactcgggttatgtcctcttttattatggatga 660

                                               
Query: 661 taattatagtggtagtggtggtaattcattaatcaa 696
           ||||||||||||||||||||||||||||||||||||
Sbjct: 661 taattatagtggtagtggtggtaattcattaatcaa 696


 Score = 1193 bits (602), Expect = 0.0
 Identities = 602/602 (100%)
 Strand = Plus / Plus

                                                                        
Query: 714  atccattatcatcattggatagacagaaattctcacgtgtaaataatatggaaaaagtta 773
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 714  atccattatcatcattggatagacagaaattctcacgtgtaaataatatggaaaaagtta 773

                                                                        
Query: 774  agatgttattcgataagattcgtttagtctctcatttctcatacgaatctcatgtattat 833
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 774  agatgttattcgataagattcgtttagtctctcatttctcatacgaatctcatgtattat 833

                                                                        
Query: 834  cagaggtattaccagttgtaatcgtagatttattcccttcagtcgatcaagttttatcct 893
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 834  cagaggtattaccagttgtaatcgtagatttattcccttcagtcgatcaagttttatcct 893

                                                                        
Query: 894  ttattttaggtgaatttttaaaacaaagtaaaacaaactcaaaattaatgtgtcaaatca 953
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 894  ttattttaggtgaatttttaaaacaaagtaaaacaaactcaaaattaatgtgtcaaatca 953

                                                                        
Query: 954  tttcaaaggttttcgatttcttggttgaaaatgatacttctgaaaatacaaatcaacatt 1013
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 954  tttcaaaggttttcgatttcttggttgaaaatgatacttctgaaaatacaaatcaacatt 1013

                                                                        
Query: 1014 taatcaactattggattatcatttgtttacaaaattttttccaaattcaaaatccaactc 1073
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1014 taatcaactattggattatcatttgtttacaaaattttttccaaattcaaaatccaactc 1073

                                                                        
Query: 1074 attgtttatgggctttaacttatttatttttaacttcttcaccaaaaagatcttttaaat 1133
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1074 attgtttatgggctttaacttatttatttttaacttcttcaccaaaaagatcttttaaat 1133

                                                                        
Query: 1134 tattggaatctgaatttgcatcaaaaattcaaacaaatgaaaaattgtttattattatag 1193
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1134 tattggaatctgaatttgcatcaaaaattcaaacaaatgaaaaattgtttattattatag 1193

                                                                        
Query: 1194 catcagaattttatttcaataaagaattatcaaaggaaaacaaacaattatttaaagatt 1253
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1194 catcagaattttatttcaataaagaattatcaaaggaaaacaaacaattatttaaagatt 1253

                                                                        
Query: 1254 ctttctcaaaattaaaaattgaaccttatatatctttattgaaagttataaatactacac 1313
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1254 ctttctcaaaattaaaaattgaaccttatatatctttattgaaagttataaatactacac 1313

              
Query: 1314 aa 1315
            ||
Sbjct: 1314 aa 1315


>Contig-U08227-1 (Contig-U08227-1Q) /CSM_Contig/Contig-U08227-1Q.Seq.d
          Length = 1211

 Score = 44.1 bits (22), Expect = 4e-04
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                 
Query: 667 tagtggtagtggtggtaattca 688
           ||||||||||||||||||||||
Sbjct: 815 tagtggtagtggtggtaattca 836


>Contig-U06733-1 (Contig-U06733-1Q) /CSM_Contig/Contig-U06733-1Q.Seq.d
          Length = 108

 Score = 38.2 bits (19), Expect = 0.024
 Identities = 25/27 (92%)
 Strand = Plus / Minus

                                       
Query: 1034 atttgtttacaaaattttttccaaatt 1060
            |||| |||| |||||||||||||||||
Sbjct: 62   atttatttataaaattttttccaaatt 36


  Database: CSM
    Posted date:  Jun 9, 2004  7:35 PM
  Number of letters in database: 5,674,871
  Number of sequences in database:  6905
  
Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 25,431
Number of Sequences: 6905
Number of extensions: 25431
Number of successful extensions: 2877
Number of sequences better than 10.0: 323
length of query: 1315
length of database: 5,674,871
effective HSP length: 16
effective length of query: 1299
effective length of database: 5,564,391
effective search space: 7228143909
effective search space used: 7228143909
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)
dna update 2008.11.22
Homology vs DNA 
Query= Contig-U10806-1 (Contig-U10806-1Q) /CSM_Contig/Contig-U10806-1Q.Seq.d
         (1315 letters)

Database: ddbj_A
           92,845,959 sequences; 95,242,211,685 total letters

Searching..................................................done

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

(BJ356290) Dictyostelium discoideum cDNA clone:dda59i24, 3' ...  1132   0.0    1
(BJ437694) Dictyostelium discoideum cDNA clone:ddv35g02, 3' ...  1130   0.0    1
(BJ348837) Dictyostelium discoideum cDNA clone:dda34d15, 3' ...  1128   0.0    1
(BJ341626) Dictyostelium discoideum cDNA clone:dda7p12, 3' e...  1128   0.0    1
(BJ386416) Dictyostelium discoideum cDNA clone:ddc58l06, 3' ...  1108   0.0    2
(BJ353605) Dictyostelium discoideum cDNA clone:dda50h20, 3' ...  1100   0.0    1
(AC116920) Dictyostelium discoideum chromosome 2 map 4415041...  1084   0.0    1
(BJ324682) Dictyostelium discoideum cDNA clone:dda7p12, 5' e...  1084   0.0    1
(BJ439869) Dictyostelium discoideum cDNA clone:ddv41l22, 3' ...  1076   0.0    1
(BJ437454) Dictyostelium discoideum cDNA clone:ddv34f11, 3' ...   965   0.0    2
(AU060447) Dictyostelium discoideum slug cDNA, clone SLJ759.      597   e-166  1
(AU053827) Dictyostelium discoideum slug cDNA, clone SLJ759.      569   e-157  1
(AE017263) Mesoplasma florum L1 complete genome.                   36   2e-05  22
(AC026793) Homo sapiens chromosome 5 clone CTD-2270I20, WORK...    48   0.011  4
(AC093211) Homo sapiens chromosome 5 clone CTD-2020P3, compl...    48   0.014  4
(AC026749) Homo sapiens chromosome 5 clone RP11-415K6, compl...    48   0.027  4
(CU302361) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    40   0.040  11
(Z19154) Caenorhabditis elegans Cosmid C40H1.                      52   0.054  1
(AC116305) Dictyostelium discoideum chromosome 2 map 1005175...    34   0.17   16
(Z54270) Caenorhabditis elegans Cosmid F11C1.                      48   0.19   2
(AC010627) Homo sapiens chromosome 5 clone CTD-2165H16, comp...    48   0.21   3
(AC159034) Pan troglodytes BAC clone CH251-335D18 from chrom...    38   0.24   7
(AC219668) Bos taurus clone CH240-326I12, WORKING DRAFT SEQU...    40   0.28   5
(CU469033) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   0.35   8
(AC200228) Zea mays chromosome 1 clone CH201-528I15; ZMMBBc0...    38   0.47   2
(AC186010) Zea mays chromosome 1 clone ZMMBBb-307B3; ZMMBBb0...    38   0.47   2
(AC186102) Microcebus murinus clone CH257-321O15, WORKING DR...    34   0.52   7
(CN778067) taf73g04.x1 Hydra EST Darmstadt I Hydra magnipapi...    44   0.58   2
(EK350912) 1095467937250 Global-Ocean-Sampling_GS-31-01-01-1...    34   0.63   3
(AC010491) Homo sapiens chromosome 5 clone CTD-2335I23, comp...    48   0.85   1
(AC156237) Bos taurus clone CH240-40A2, WORKING DRAFT SEQUEN...    48   0.85   1
(AC129437) Rattus norvegicus clone CH230-252K8, *** SEQUENCI...    48   0.85   1
(AC123086) Rattus norvegicus clone CH230-10P9, WORKING DRAFT...    48   0.85   1
(AC026715) Homo sapiens chromosome 5 clone CTD-2135A10, WORK...    48   0.85   1
(AC219478) Bos taurus clone CH240-333C15, WORKING DRAFT SEQU...    48   0.85   1
(AC219477) Bos taurus clone CH240-333C13, WORKING DRAFT SEQU...    48   0.85   1
(AC186644) Zea mays chromosome 8 clone ZMMBBb-218L14; ZMMBBb...    48   0.85   1
(AM645139) Entamoeba moshkovskii FIC GSS, clone mosh021c02.p1k.    48   0.85   1
(CG260168) OG2AM55TH ZM_0.7_1.5_KB Zea mays genomic clone ZM...    48   0.85   1
(CG255783) OGXFC09TV ZM_0.7_1.5_KB Zea mays genomic clone ZM...    48   0.85   1
(CG187896) PUJAJ21TD ZM_0.6_1.0_KB Zea mays genomic clone ZM...    48   0.85   1
(BH783945) fzmb013f014g09k0 fzmb filtered library Zea mays g...    48   0.85   1
(EG451652) AYAMT16TF pooled cDNA populations Arabidopsis tha...    48   0.85   1
(FF492096) G708P5210RF6.T0 Acorn worm normalized gastrula pE...    48   0.85   1
(AB232918) Oryzias latipes hox gene cluster, complete cds.         36   0.90   9
(AC023736) Drosophila melanogaster X BAC RP98-4P5 (Roswell P...    36   0.91   6
(AC199714) Pan troglodytes BAC clone CH251-694F23 from chrom...    32   1.0    11
(AC093658) Homo sapiens chromosome 4 clone RP11-452F2, *** S...    42   1.3    7
(AM480588) Vitis vinifera contig VV78X107304.4, whole genome...    34   1.6    4
(CU407285) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    32   1.7    2
(EY199193) IR24H-P2_C08.AB1 24 hours after attachment adult ...    44   1.7    2
(AC136905) Oryza sativa Japonica Group chromosome 11 clone O...    36   1.7    2
(AL021172) Caenorhabditis elegans YAC Y17G7A.                      32   1.9    4
(EA692338) Sequence 71217 from patent US 7365185.                  36   1.9    2
(AF549841) Ixodes minor 16S ribosomal RNA gene, partial sequ...    44   2.2    2
(AC164497) Oryctolagus cuniculus clone LB1-320B23, WORKING D...    44   2.3    6
(DE873410) Macropus eugenii DNA, BAC clone: MEB1-044B17_R, 3...    34   2.3    2
(EI029729) hgz0003bg11.b1 hgz Oryza alta genomic clone hgz00...    34   2.3    2
(DU536931) OO__Ba0007P06.r OO__Ba Oryza officinalis genomic ...    34   2.3    2
(CX736479) 804002 MARC 6BOV Bos taurus cDNA 3', mRNA sequence.     36   2.3    2
(AX345368) Sequence 439 from Patent WO0200928.                     36   2.6    4
(CN473374) USDA-FP_122462 Diaprepes abbreviatus, Diaprepes r...    38   2.7    2
(EK130347) 1093006417633 Global-Ocean-Sampling_GS-31-01-01-1...    30   3.0    4
(AC159382) Bos taurus clone CH240-74H17, WORKING DRAFT SEQUE...    38   3.0    7
(EI711039) 2B421001C08TF BAC library from breast tumor sampl...    36   3.3    2
(BX663531) Chicken DNA sequence from clone WAG-18M1.               46   3.4    1
(AP004717) Gallus gallus genomic DNA, chromosome 5, clone:16...    46   3.4    1
(AC159011) Gallus gallus BAC clone CH261-107A24 from chromos...    46   3.4    1
(AY129964) Mus musculus strain C3H GPI-gamma 4 gene, complet...    46   3.4    1
(AC121578) Mus musculus BAC clone RP23-253I14 from 5, comple...    46   3.4    1
(CU302335) Medicago truncatula chromosome 5 clone mth2-155g2...    46   3.4    1
(AM423424) Vitis vinifera contig VV78X159211.3, whole genome...    46   3.4    1
(EA737903) Sequence 9349 from patent US 7368527.                   46   3.4    1
(EA737900) Sequence 9346 from patent US 7368527.                   46   3.4    1
(DJ132271) Method for identification of useful proteins deri...    46   3.4    1
(AC190394) Canis Familiaris chromosome 26, clone XX-497F13, ...    46   3.4    1
(CR954269) Human DNA sequence from clone XX-NCIH2171_11B08.        46   3.4    1
(AL132780) Human chromosome 14 DNA sequence BAC R-298I3 of l...    46   3.4    1
(AC112499) Homo sapiens X BAC RP11-2N21 (Roswell Park Cancer...    46   3.4    1
(AC143638) Macaca mulatta clone CH250-269N7, *** SEQUENCING ...    46   3.4    1
(AP009909) Lotus japonicus genomic DNA, clone: LjT39A22, TM2...    46   3.4    1
(AC194492) Echinops telfairi clone CH238-172A16, WORKING DRA...    46   3.4    1
(AC025298) Homo sapiens clone RP11-2N21, WORKING DRAFT SEQUE...    46   3.4    1
(AZ909237) RPCI-24-160L22.TJ RPCI-24 Mus musculus genomic cl...    46   3.4    1
(CR506480) mth4-40P16FM1 BAC end, cultivar Jemalong A17 of M...    46   3.4    1
(CG942617) MBEAF35TR mth2 Medicago truncatula genomic clone ...    46   3.4    1
(DT356111) JGI_CABX709.fwd CABX Pimephales promelas ovary 7-...    46   3.4    1
(DT356110) JGI_CABX709.rev CABX Pimephales promelas ovary 7-...    46   3.4    1
(DT340903) JGI_CAAX6787.fwd CAAX Pimephales promelas testis ...    46   3.4    1
(DT317581) JGI_CAAX6132.fwd CAAX Pimephales promelas testis ...    46   3.4    1
(DT317149) JGI_CAAX5883.fwd CAAX Pimephales promelas testis ...    46   3.4    1
(DT317148) JGI_CAAX5883.rev CAAX Pimephales promelas testis ...    46   3.4    1
(DT311182) JGI_CAAX2216.fwd CAAX Pimephales promelas testis ...    46   3.4    1
(DT177961) JGI_ANNO46443.fwd ANNO Pimephales promelas Whole ...    46   3.4    1
(DT177960) JGI_ANNO46443.rev ANNO Pimephales promelas Whole ...    46   3.4    1
(DT162637) JGI_ANNO37557.fwd ANNO Pimephales promelas Whole ...    46   3.4    1
(DT138765) JGI_ANNO17794.fwd ANNO Pimephales promelas Whole ...    46   3.4    1
(DT138764) JGI_ANNO17794.rev ANNO Pimephales promelas Whole ...    46   3.4    1
(DT110571) JGI_ANNO935.fwd ANNO Pimephales promelas Whole (M...    46   3.4    1
(DT110570) JGI_ANNO935.rev ANNO Pimephales promelas Whole (M...    46   3.4    1

>(BJ356290) Dictyostelium discoideum cDNA clone:dda59i24, 3' end,
            single read.
          Length = 726

 Score = 1132 bits (571), Expect = 0.0
 Identities = 571/571 (100%)
 Strand = Plus / Minus


Query: 714  atccattatcatcattggatagacagaaattctcacgtgtaaataatatggaaaaagtta 773
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 571  atccattatcatcattggatagacagaaattctcacgtgtaaataatatggaaaaagtta 512


Query: 774  agatgttattcgataagattcgtttagtctctcatttctcatacgaatctcatgtattat 833
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 511  agatgttattcgataagattcgtttagtctctcatttctcatacgaatctcatgtattat 452


Query: 834  cagaggtattaccagttgtaatcgtagatttattcccttcagtcgatcaagttttatcct 893
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 451  cagaggtattaccagttgtaatcgtagatttattcccttcagtcgatcaagttttatcct 392


Query: 894  ttattttaggtgaatttttaaaacaaagtaaaacaaactcaaaattaatgtgtcaaatca 953
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 391  ttattttaggtgaatttttaaaacaaagtaaaacaaactcaaaattaatgtgtcaaatca 332


Query: 954  tttcaaaggttttcgatttcttggttgaaaatgatacttctgaaaatacaaatcaacatt 1013
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 331  tttcaaaggttttcgatttcttggttgaaaatgatacttctgaaaatacaaatcaacatt 272


Query: 1014 taatcaactattggattatcatttgtttacaaaattttttccaaattcaaaatccaactc 1073
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 271  taatcaactattggattatcatttgtttacaaaattttttccaaattcaaaatccaactc 212


Query: 1074 attgtttatgggctttaacttatttatttttaacttcttcaccaaaaagatcttttaaat 1133
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 211  attgtttatgggctttaacttatttatttttaacttcttcaccaaaaagatcttttaaat 152


Query: 1134 tattggaatctgaatttgcatcaaaaattcaaacaaatgaaaaattgtttattattatag 1193
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 151  tattggaatctgaatttgcatcaaaaattcaaacaaatgaaaaattgtttattattatag 92


Query: 1194 catcagaattttatttcaataaagaattatcaaaggaaaacaaacaattatttaaagatt 1253
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 91   catcagaattttatttcaataaagaattatcaaaggaaaacaaacaattatttaaagatt 32


Query: 1254 ctttctcaaaattaaaaattgaaccttatat 1284
            |||||||||||||||||||||||||||||||
Sbjct: 31   ctttctcaaaattaaaaattgaaccttatat 1

 Score =  218 bits (110), Expect = 4e-52
 Identities = 110/110 (100%)
 Strand = Plus / Minus


Query: 559 aattcattgacagcatttgaaggttcattcagttcaagttctatagaatcaccattaaac 618
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 726 aattcattgacagcatttgaaggttcattcagttcaagttctatagaatcaccattaaac 667


Query: 619 tctgcattggactcgggttatgtcctcttttattatggatgataattata 668
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 666 tctgcattggactcgggttatgtcctcttttattatggatgataattata 617

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 1,722,798,222
Number of extensions: 111459618
Number of successful extensions: 9733837
Number of sequences better than 10.0: 153
Length of query: 1315
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 1291
Effective length of database: 97,308,875,965
Effective search space: 125625758870815
Effective search space used: 125625758870815
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 6.28
Homology vs Protein 
Query= Contig-U10806-1 (Contig-U10806-1Q) /CSM_Contig/Contig-U10806-1Q.Seq.d
         (1315 letters)

Database: nrp_A
           3,204,285 sequences; 1,040,966,779 total letters

Searching..................................................done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

EF210456_1(EF210456|pid:none) Branchiostoma floridae huntingtin ...    85   5e-15
AF052602_1(AF052602|pid:none) Danio rerio huntingtin (HD) mRNA, ...    77   2e-12
AL954671_5(AL954671|pid:none) Zebrafish DNA sequence from clone ...    75   5e-12
(P51112) RecName: Full=Huntingtin; AltName: Full=Huntington dise...    74   9e-12
AM238514_1(AM238514|pid:none) Ciona intestinalis mRNA for huntin...    74   9e-12
U24233_1(U24233|pid:none) Mus musculus huntingtin (Hd) mRNA, com...    73   3e-11
AM162277_1(AM162277|pid:none) Ciona intestinalis mRNA for huntin...    72   4e-11
L28827_1(L28827|pid:none) Mouse Huntington's Disease gene homolo...    72   6e-11
(P42859) RecName: Full=Huntingtin; AltName: Full=Huntington dise...    72   6e-11
AX460946_1(AX460946|pid:none) Sequence 7 from Patent WO0229408.        70   1e-10
AX460944_1(AX460944|pid:none) Sequence 5 from Patent WO0229408.        70   1e-10
AK290544_1(AK290544|pid:none) Homo sapiens cDNA FLJ76709 complet...    70   1e-10
AB016794_1(AB016794|pid:none) Homo sapiens mRNA for huntingtin, ...    70   1e-10
L23313_1(L23313|pid:none) Mouse alternatively spliced HD protein...    69   3e-10
AM398552_1(AM398552|pid:none) Strongylocentrotus purpuratus mRNA...    58   7e-07
AM398544_1(AM398544|pid:none) Strongylocentrotus purpuratus mRNA...    57   1e-06
AM398547_1(AM398547|pid:none) Strongylocentrotus purpuratus mRNA...    55   6e-06
AM398551_1(AM398551|pid:none) Strongylocentrotus purpuratus mRNA...    54   2e-05
AM398545_1(AM398545|pid:none) Strongylocentrotus purpuratus mRNA...    53   2e-05
Z49769_1(Z49769|pid:none) Human DNA sequence from clone LA04NC01...    47   0.001
AM398556_1(AM398556|pid:none) Strongylocentrotus purpuratus mRNA...    42   0.049
AF177386_1(AF177386|pid:none) Drosophila melanogaster huntingtin...    38   0.70
CP000485_3727(CP000485|pid:none) Bacillus thuringiensis str. Al ...    37   1.6
CP001177_4277(CP001177|pid:none) Bacillus cereus AH187, complete...    37   1.6
AF068184_1(AF068184|pid:none) Buzura suppressaria nucleopolyhedr...    36   2.7
CP000462_2099(CP000462|pid:none) Aeromonas hydrophila subsp. hyd...    36   2.7
BA000026_1024(BA000026|pid:none) Mycoplasma penetrans HF-2 DNA, ...    35   6.0

>EF210456_1(EF210456|pid:none) Branchiostoma floridae huntingtin (Htt)
            mRNA, complete cds.
          Length = 3090

 Score = 85.1 bits (209), Expect = 5e-15
 Identities = 56/190 (29%), Positives = 99/190 (52%), Gaps = 8/190 (4%)
 Frame = +2

Query: 761  MEKVKMLFDKIRLVSHFSYESHVLSEVLPVVIVDLFPSVDQVLSFILGEFLKQSKTNSKL 940
            ME+V +LFD+IR    F  E+ V++ +LP  + D FP+ D +++ ++GEFL   + + +L
Sbjct: 2909 MERVTVLFDRIR--KGFPCEARVVARILPTFLDDFFPAQD-IMNKVIGEFLSSQQPHPQL 2965

Query: 941  MCQIISKVFDFLVENDTSENTNQHLINYWIIICLQNFFQIQNPTHCLWALTYLFLTSSPK 1120
            M +++  VF  L E D      Q ++  W+++ L NF Q        W+LT  FL++S
Sbjct: 2966 MAKVLCDVFHNLHERD-----QQQVVRDWVMLSLSNFTQRTPVAMATWSLTCFFLSASTN 3020

Query: 1121 RSFKLLESEFASKI----QTNEKLFIIIASEFYFNKELSKENKQLFKDSF----SKLKIE 1276
                 L      ++      + KLF I A +FY N+   + +++ F+  F    S
Sbjct: 3021 PWVCALLPHVIGRMGLMETVDRKLFCITALDFYKNQITEELDRRAFESIFQAASSSAPDG 3080

Query: 1277 PYISLLKVIN 1306
            PY+ L+++I+
Sbjct: 3081 PYLQLIQLIH 3090

 Score = 73.2 bits (178), Expect = 2e-11
 Identities = 53/191 (27%), Positives = 95/191 (49%), Gaps = 8/191 (4%)
 Frame = +1

Query: 1    KSTVLLSDLFNR-EQVIWMFKTFTTIYAQDEIDDFLLKQHLILGICKGIAILQTPPNVGD 177
            KS +L+SDLF    Q  WMF +   +     ++D +L Q+++ G+CK  A++     V +
Sbjct: 2653 KSILLISDLFTELRQYEWMFDSLLELNKIHPVEDEILLQYVVPGVCKAGAVMGMEGPVAE 2712

Query: 178  SNAHSVGIFEMLKSALDHQNISLQVSALDGILYLLE---GKVNKYIQGSLLQFLFRWIPT 348
                   + ++L+S+L   ++  +V ++ G LY+LE    +  K +   L  +L + IP
Sbjct: 2713 R------VSKLLESSLKSTHLPTKVGSVYGSLYILEAGPSEATKLLVPVLQDYLSKNIPP 2766

Query: 349  RLSSVPFPPVSLTLRVLATMFLMIEQYSREAEETLF----TKRAVTTCIQLGQQQSTPVP 516
                         L + AT F ++E Y  + +E+ F     + A+TT    G ++ TP P
Sbjct: 2767 TAQCCIVHVEPHVLAMWATAFYLMEHYQEDLKESDFKSTMLQAAITTA--SGSEEVTPAP 2824

Query: 517  IVYGVFRGLDR 549
            + + V RGL+R
Sbjct: 2825 VYHAVVRGLER 2835

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3204285
Number of Hits to DB: 1,985,653,868
Number of extensions: 38902173
Number of successful extensions: 84330
Number of sequences better than 10.0: 27
Number of HSP's gapped: 84234
Number of HSP's successfully gapped: 42
Length of query: 438
Length of database: 1,040,966,779
Length adjustment: 132
Effective length of query: 306
Effective length of database: 618,001,159
Effective search space: 189108354654
Effective search space used: 189108354654
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 32 (16.9 bits)
PSORT 

 psg: 0.58  gvh: 0.57  alm: 0.36  top: 0.53  tms: 0.00  mit: 0.26  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.00  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 0.00  tyr: 0.00  leu: 0.00  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 44.0 %: cytoplasmic
	 24.0 %: nuclear
	 16.0 %: mitochondrial
	  8.0 %: vesicles of secretory system
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar

>> prediction for Contig-U10806-1 is cyt
VS (DIR, S) 0
VH (FL, L) 3
VF (FL, S) 0
AH (FL, L) 3
AF (FL, S) 1
SL (DIR, L) 1
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 1
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0