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Dicty_cDB
Contig List | Clone List | cDNA Library List
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
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Contig-U12408-1
Contig ID Contig-U12408-1
Contig update 2002.12.18
Contig sequence 
>Contig-U12408-1 (Contig-U12408-1Q) /CSM_Contig/Contig-U12408-1Q.Seq.d
ACAAATTTATTTTTTAAAAAATATATTAAAAAGGATATTTTTTTCAGTAA
TTGTCTAATAAAACTATTTTTATATTTTTTTATATAAAAATAATTTTTTT
TTAAAAAAAAAA----------CAATTATCACCAATTAGAGATATTAATG
AAGGTATTTTTATAACATTAGCACAAACTATGAGTATGATGGGATATTTC
AATAATGTTAGTAATGATCCCTCAAAGAAAACTTTGAAATATAGTCAATT
TTTAGAAAATGTTTCAAATACTAAATTACAAGAACCAACTTTACTTTTAA
TTGAATTATTAAGATCTGGTTCTTTTACTTTTGAAAGATTAAATTTTATT
CCAAAACCAACTTTTGATGGTCCACCTTCAAAACCATCTGTTTTCATAAT
CTCTCGAGTTTTAAGTTTAATTCCAAGTCAATTGGATAATACACCATGGG
GTGGACCAATTGATCATGATTTAATGGGTTTCCATGAAATTACACGTACT
CTTTACAAATCATTAAGAAATCTTATTGAAATGACTGCATTATCTCACTT
TTTAACTCATAGAATTGTATTACCACCACCAGAGTACTTTACATTTTCAA
CAAGATTACCATTTTTCCTTCAACCCAAGTTCAAGTATGGGTCTTTTAGT
TAAAGGTCTTTTATTAGAGAATTTATCATTGGAACAATTGGAAGAGATTT
GTCCCAAATTTCACAAATATCAAAGAGGATTTGGCTTTAGCTTCTCAATT
TTGGGATACTGCATTTAAGATTGTCACCGCCATTCACAACGAAGGTAACA
TTATTAGCAAAACAATTTATGAAGCTTTTGTTGAAGCAGACAAAGAAGGA
GAGAAATAAGAAAAACTTTAATTAGGNAAAAAATTCAATCAAAATTTGTT
Gap gap included
Contig length 890
Chromosome number (1..6, M) 3
Chromosome length 6358359
Start point 4093826
End point 4092933
Strand (PLUS/MINUS) MINUS
Number of clones 8
Number of EST 11
Link to clone list U12408
List of clone(s) 

est1=VHE349F,1,111
est2=VHC147F,2,111
est3=VHE391F,2,112
est4=VHO347Z,113,890
est5=VHC147Z,119,885
est6=VHQ116Z,119,885
est7=VHD744Z,122,890
est8=VHO342Z,134,758
est9=VHP380Z,319,876
est10=VHE391Z,323,756
est11=VHE349Z,373,885
Translated Amino Acid sequence 
qiyflknilkriffsviv**NYFYIFLYKNNFFLKKK---

---QLSPIRDINEGIFITLAQTMSMMGYFNNVSNDPSKKTLKYSQFLENVSNTKLQEPTL
LLIELLRSGSFTFERLNFIPKPTFDGPPSKPSVFIISRVLSLIPSQLDNTPWGGPIDHDL
MGFHEITRTLYKSLRNLIEMTALSHFLTHRIVLPPPEYFTFSTRLPFFLQPKFKYGSFS*
rsfirefiigtigrdlsqisqiskriwl*llnfgilhlrlsppfttkvtllakqfmklll
kqtkkernkknfn*xknsikic
Translated Amino Acid sequence (All Frames) 
Frame A:
tnlffkkyikkdiffsncliklflyffi*k*fffkkk---

---QLSPIRDINEGIFITLAQTMSMMGYFNNVSNDPSKKTLKYSQFLENVSNTKLQEPTL
LLIELLRSGSFTFERLNFIPKPTFDGPPSKPSVFIISRVLSLIPSQLDNTPWGGPIDHDL
MGFHEITRTLYKSLRNLIEMTALSHFLTHRIVLPPPEYFTFSTRLPFFLQPKFKYGSFS*
rsfirefiigtigrdlsqisqiskriwl*llnfgilhlrlsppfttkvtllakqfmklll
kqtkkernkknfn*xknsikic

Frame B:
qiyflknilkriffsviv**NYFYIFLYKNNFFLKKK---

---nyhqleilmkvfl*h*hkl*v*wdisimlvmipqrkl*nivnf*kmfqilnyknqly
f*lny*dlvllllkd*ilfqnqllmvhlqnhlfs*slef*v*fqvnwiihhgvdqlimi*
wvsmklhvlftnh*eillk*lhyltf*lielyyhhqstlhfqqdyhfsfnpsssmgllvk
glllenlsleqleeicpkfhkyqrgfgfsfsilgyci*dchrhsqrr*hy*qnnl*sfc*
srqrrreirktlirxkiqskfv

Frame C:
kfif*kiy*kgyffq*lsnktififfyikiiff*kk---

---iitn*ry**ryfynistnyeydgifq*c***slkenfei*sifrkcfky*itrtnft
fn*iikiwffyf*kikfysktnf*wstfkticfhnlssfkfnsksig*ytmgwtn*s*fn
gfp*nytyslqiikksy*ndciislfns*ncitttrvlyifnkitifpstqvqvwvf*lk
vfy*riyhwnnwkrfvpnftnikedlalasqfwdtafkivtaihnegniisktiyeafve
adkegek*ekl*lgkkfnqnl
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U12408-1 (Contig-U12408-1Q)
/CSM_Contig/Contig-U12408-1Q.Seq.d
         (900 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U12408-1 (Contig-U12408-1Q) /CSM_Contig/Conti...  1536  0.0
Contig-U14248-1 (Contig-U14248-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U11536-1 (Contig-U11536-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U09214-1 (Contig-U09214-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U04561-1 (Contig-U04561-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U14177-1 (Contig-U14177-1Q) /CSM_Contig/Conti...    38  0.016
Contig-U11681-1 (Contig-U11681-1Q) /CSM_Contig/Conti...    38  0.016
Contig-U11094-1 (Contig-U11094-1Q) /CSM_Contig/Conti...    38  0.016
Contig-U11048-1 (Contig-U11048-1Q) /CSM_Contig/Conti...    38  0.016
Contig-U09703-1 (Contig-U09703-1Q) /CSM_Contig/Conti...    38  0.016

>Contig-U12408-1 (Contig-U12408-1Q) /CSM_Contig/Contig-U12408-1Q.Seq.d
          Length = 900

 Score = 1536 bits (775), Expect = 0.0
 Identities = 778/778 (100%)
 Strand = Plus / Plus

                                                                       
Query: 123 caattatcaccaattagagatattaatgaaggtatttttataacattagcacaaactatg 182
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 123 caattatcaccaattagagatattaatgaaggtatttttataacattagcacaaactatg 182

                                                                       
Query: 183 agtatgatgggatatttcaataatgttagtaatgatccctcaaagaaaactttgaaatat 242
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 183 agtatgatgggatatttcaataatgttagtaatgatccctcaaagaaaactttgaaatat 242

                                                                       
Query: 243 agtcaatttttagaaaatgtttcaaatactaaattacaagaaccaactttacttttaatt 302
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 243 agtcaatttttagaaaatgtttcaaatactaaattacaagaaccaactttacttttaatt 302

                                                                       
Query: 303 gaattattaagatctggttcttttacttttgaaagattaaattttattccaaaaccaact 362
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 303 gaattattaagatctggttcttttacttttgaaagattaaattttattccaaaaccaact 362

                                                                       
Query: 363 tttgatggtccaccttcaaaaccatctgttttcataatctctcgagttttaagtttaatt 422
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 363 tttgatggtccaccttcaaaaccatctgttttcataatctctcgagttttaagtttaatt 422

                                                                       
Query: 423 ccaagtcaattggataatacaccatggggtggaccaattgatcatgatttaatgggtttc 482
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 423 ccaagtcaattggataatacaccatggggtggaccaattgatcatgatttaatgggtttc 482

                                                                       
Query: 483 catgaaattacacgtactctttacaaatcattaagaaatcttattgaaatgactgcatta 542
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 483 catgaaattacacgtactctttacaaatcattaagaaatcttattgaaatgactgcatta 542

                                                                       
Query: 543 tctcactttttaactcatagaattgtattaccaccaccagagtactttacattttcaaca 602
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 543 tctcactttttaactcatagaattgtattaccaccaccagagtactttacattttcaaca 602

                                                                       
Query: 603 agattaccatttttccttcaacccaagttcaagtatgggtcttttagttaaaggtctttt 662
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 603 agattaccatttttccttcaacccaagttcaagtatgggtcttttagttaaaggtctttt 662

                                                                       
Query: 663 attagagaatttatcattggaacaattggaagagatttgtcccaaatttcacaaatatca 722
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 663 attagagaatttatcattggaacaattggaagagatttgtcccaaatttcacaaatatca 722

                                                                       
Query: 723 aagaggatttggctttagcttctcaattttgggatactgcatttaagattgtcaccgcca 782
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 723 aagaggatttggctttagcttctcaattttgggatactgcatttaagattgtcaccgcca 782

                                                                       
Query: 783 ttcacaacgaaggtaacattattagcaaaacaatttatgaagcttttgttgaagcagaca 842
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 783 ttcacaacgaaggtaacattattagcaaaacaatttatgaagcttttgttgaagcagaca 842

                                                                     
Query: 843 aagaaggagagaaataagaaaaactttaattaggnaaaaaattcaatcaaaatttgtt 900
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 843 aagaaggagagaaataagaaaaactttaattaggnaaaaaattcaatcaaaatttgtt 900


 Score = 63.9 bits (32), Expect = 3e-10
 Identities = 32/32 (100%)
 Strand = Plus / Plus

                                          
Query: 1  acaaatttattttttaaaaaatatattaaaaa 32
          ||||||||||||||||||||||||||||||||
Sbjct: 1  acaaatttattttttaaaaaatatattaaaaa 32


 Score = 32.2 bits (16), Expect = 0.99
 Identities = 16/16 (100%)
 Strand = Plus / Minus

                          
Query: 8  tattttttaaaaaata 23
          ||||||||||||||||
Sbjct: 23 tattttttaaaaaata 8


>Contig-U14248-1 (Contig-U14248-1Q) /CSM_Contig/Contig-U14248-1Q.Seq.d
          Length = 338

 Score = 42.1 bits (21), Expect = 0.001
 Identities = 24/25 (96%)
 Strand = Plus / Minus

                                   
Query: 8  tattttttaaaaaatatattaaaaa 32
          |||||||||||||||| ||||||||
Sbjct: 68 tattttttaaaaaatagattaaaaa 44


 Score = 34.2 bits (17), Expect = 0.25
 Identities = 17/17 (100%)
 Strand = Plus / Plus

                           
Query: 8  tattttttaaaaaatat 24
          |||||||||||||||||
Sbjct: 53 tattttttaaaaaatat 69


>Contig-U11536-1 (Contig-U11536-1Q) /CSM_Contig/Contig-U11536-1Q.Seq.d
          Length = 1532

 Score = 42.1 bits (21), Expect = 0.001
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                 
Query: 3    aaatttattttttaaaaaata 23
            |||||||||||||||||||||
Sbjct: 1469 aaatttattttttaaaaaata 1489


 Score = 34.2 bits (17), Expect = 0.25
 Identities = 17/17 (100%)
 Strand = Plus / Minus

                             
Query: 7    ttattttttaaaaaata 23
            |||||||||||||||||
Sbjct: 1490 ttattttttaaaaaata 1474


  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: 16,700
Number of Sequences: 6905
Number of extensions: 16700
Number of successful extensions: 2190
Number of sequences better than 10.0: 278
length of query: 900
length of database: 5,674,871
effective HSP length: 16
effective length of query: 884
effective length of database: 5,564,391
effective search space: 4918921644
effective search space used: 4918921644
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 2008.11.30
Homology vs DNA 
Query= Contig-U12408-1 (Contig-U12408-1Q) /CSM_Contig/Contig-U12408-1Q.Seq.d
         (900 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

(BJ445429) Dictyostelium discoideum cDNA clone:ddv59n11, 3' ...   997   0.0    3
(BJ446591) Dictyostelium discoideum cDNA clone:ddv63o03, 3' ...   985   0.0    3
(BJ437803) Dictyostelium discoideum cDNA clone:ddv35m11, 3' ...   985   0.0    3
(BJ438745) Dictyostelium discoideum cDNA clone:ddv38h11, 3' ...   979   0.0    3
(BJ445377) Dictyostelium discoideum cDNA clone:ddv59d11, 3' ...   862   0.0    3
(BJ439116) Dictyostelium discoideum cDNA clone:ddv39b13, 3' ...   482   0.0    3
(BJ446193) Dictyostelium discoideum cDNA clone:ddv61p19, 3' ...   319   0.0    5
(BJ439231) Dictyostelium discoideum cDNA clone:ddv39f23, 3' ...   642   0.0    2
(CP000697) Acidiphilium cryptum JF-5, complete genome.             52   0.037  1
(EJ559286) 1092959534696 Global-Ocean-Sampling_GS-29-01-01-1...    40   0.41   2
(ER584629) 1093015861854 Global-Ocean-Sampling_GS-36-01-01-2...    40   0.49   2
(EJ559634) 1092959537384 Global-Ocean-Sampling_GS-29-01-01-1...    40   0.51   2
(ER329471) 1092344243240 Global-Ocean-Sampling_GS-34-01-01-1...    40   0.55   2
(EJ694627) 1092956014420 Global-Ocean-Sampling_GS-30-02-01-1...    48   0.58   1
(EJ673432) 1092955067314 Global-Ocean-Sampling_GS-30-02-01-1...    48   0.58   1
(AG346985) Mus musculus molossinus DNA, clone:MSMg01-142F15....    48   0.58   1
(CU326388) Medicago truncatula chromosome 5 clone mte1-64l12...    40   1.1    4
(AC000120) Homo sapiens BAC clone CTB-161K23 from 7, complet...    36   1.2    5
(EK270853) 1095462256284 Global-Ocean-Sampling_GS-31-01-01-1...    38   1.8    2
(AC092762) Pan troglodytes clone RP43-108O4, WORKING DRAFT S...    36   1.9    5
(EK229955) 1095460175434 Global-Ocean-Sampling_GS-31-01-01-1...    38   1.9    2
(CR381594) Zebrafish DNA sequence from clone DKEY-12H3 in li...    46   2.3    1
(BV351005) S230P6164RB10.T0 Rottweiler Canis familiaris STS ...    46   2.3    1
(BV241702) S234P6230FB4.T0 EnglishShepherd Canis familiaris ...    46   2.3    1
(AP010353) Lotus japonicus genomic DNA, chromosome 4, clone:...    46   2.3    1
(AP009644) Lotus japonicus genomic DNA, clone: LjB15P09, BM2...    46   2.3    1
(AM431096) Vitis vinifera contig VV78X088867.4, whole genome...    46   2.3    1
(CU856472) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   2.3    1
(AZ690842) ENTGY43TR Entamoeba histolytica Sheared DNA Entam...    46   2.3    1
(EK264126) 1095462205326 Global-Ocean-Sampling_GS-31-01-01-1...    46   2.3    1
(EK224304) 1095460153705 Global-Ocean-Sampling_GS-31-01-01-1...    46   2.3    1
(CE841690) tigr-gss-dog-17000332669463 Dog Library Canis lup...    46   2.3    1
(DN126565) 1140506 MARC 4PIG Sus scrofa cDNA 5', mRNA sequence.    46   2.3    1
(DN103312) 1098441 MARC 4PIG Sus scrofa cDNA 3', mRNA sequence.    46   2.3    1
(DN102060) 1096929 MARC 4PIG Sus scrofa cDNA 3', mRNA sequence.    46   2.3    1
(DB694751) Solanum lycopersicum cDNA, clone: LEFL1052BF09, 5...    46   2.3    1
(CV875379) PDUts1138G01 Porcine testis cDNA library I Sus sc...    46   2.3    1
(AJ682102) Sus scrofa EST, clone C0001798_B23.                     46   2.3    1
(CF364340) 834283 MARC 3PIG Sus scrofa cDNA 5', mRNA sequence.     46   2.3    1
(BI924842) EST544731 tomato flower, buds 0-3 mm Solanum lyco...    46   2.3    1
(AW618061) EST314111 L. pennellii trichome, Cornell Universi...    46   2.3    1
(EW675882) rvin027_g22.y1 vin Sus scrofa cDNA 5', mRNA seque...    46   2.3    1
(EW657197) rtra33_e13.y1 tra Sus scrofa cDNA 5', mRNA sequence.    46   2.3    1
(EW655959) rtra07_h4r1.y1 tra Sus scrofa cDNA 5', mRNA seque...    46   2.3    1
(EW640910) rthg17_e21.y1 thg Sus scrofa cDNA 5', mRNA sequence.    46   2.3    1
(EW638509) rthg26_m3.y1 thg Sus scrofa cDNA 5', mRNA sequence.     46   2.3    1
(EW614554) rsug12_m24.y1 sug Sus scrofa cDNA 5', mRNA sequence.    46   2.3    1
(EW551945) rsin31_p5.y1 sin Sus scrofa cDNA 5', mRNA sequence.     46   2.3    1
(EW527075) rrec15_a15.y1 rec Sus scrofa cDNA 5', mRNA sequence.    46   2.3    1
(EW326858) rlin10_b12.y1 lin Sus scrofa cDNA 5', mRNA sequence.    46   2.3    1
(EW326850) rlin18_m5r1.y1 lin Sus scrofa cDNA 5', mRNA seque...    46   2.3    1
(EW302690) ruio05_d8.y1 kid Sus scrofa cDNA 5', mRNA sequence.     46   2.3    1
(EW264096) risp36_k8.y1 isp Sus scrofa cDNA 5', mRNA sequence.     46   2.3    1
(EW230113) rhea11_g22.y1 hea Sus scrofa cDNA 5', mRNA sequence.    46   2.3    1
(AC152244) Bos taurus clone CH240-7O1, WORKING DRAFT SEQUENC...    38   2.3    5
(CU004572) Equus caballus GSS, BAC clone CH241-72G7, SP6 end...    36   2.5    3
(AE017263) Mesoplasma florum L1 complete genome.                   32   4.0    15
(CW732401) MARC_791726 CHORI-240-23M22 Bos taurus genomic cl...    42   4.2    2
(AC161122) Pan troglodytes BAC clone CH251-727J16 from chrom...    36   4.2    5
(AL929507) Zebrafish DNA sequence from clone DKEY-7C18 in li...    34   4.3    2
(CU462850) Zebrafish DNA sequence *** SEQUENCING CANCELLED *...    34   4.3    2
(CU633715) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    32   4.3    2
(AP004739) Oryza sativa Japonica Group genomic DNA, chromoso...    34   4.4    2
(AP003613) Oryza sativa Japonica Group genomic DNA, chromoso...    34   4.4    2
(AM487937) Vitis vinifera contig VV78X233643.7, whole genome...    34   5.0    2
(AB028617) Arabidopsis thaliana genomic DNA, chromosome 3, P...    44   5.6    2
(AC165806) Bos taurus clone CH240-158B23, WORKING DRAFT SEQU...    40   5.8    3
(CL061501) CH216-95O17_RM1.1 CH216 Xenopus (Silurana) tropic...    32   5.8    2
(CT111705) Sus scrofa genomic clone CH242-233M13, genomic su...    32   5.8    2
(FH172425) CHO_OF3389xb13f1.ab1 CHO_OF3 Nicotiana tabacum ge...    32   5.8    2
(EI056897) hgu0001ch05.g1 hgu Oryza glaberrima genomic clone...    34   5.8    2
(EJ319857) 1095403351498 Global-Ocean-Sampling_GS-27-01-01-1...    38   5.9    2
(AC137781) Homo sapiens chromosome 5 clone RP11-1108I11, com...    40   6.3    4
(AC090674) Homo sapiens chromosome 12q clone RP11-26N11, WOR...    32   6.3    6
(EK374130) 1095469431266 Global-Ocean-Sampling_GS-31-01-01-1...    34   6.4    2
(EJ386869) 1092963822302 Global-Ocean-Sampling_GS-28-01-01-1...    38   6.6    2
(EJ158255) 1092344037964 Global-Ocean-Sampling_GS-27-01-01-1...    38   7.2    2
(AC004709) Plasmodium falciparum chromosome 12, *** SEQUENCI...    40   7.5    6
(AC190258) Pan troglodytes chromosome 7 clone CH251-12C9, co...    34   7.8    7
(AC199762) Medicago truncatula chromosome 2 clone mth2-69b4,...    32   7.9    7
(BM918630) AGENCOURT_6635000 NIH_MGC_120 Homo sapiens cDNA c...    42   8.7    2
(G51721) SHGC-84482 Human Homo sapiens STS genomic, sequence...    44   9.0    1
(G50699) SHGC-83909 Human Homo sapiens STS genomic, sequence...    44   9.0    1
(AL645972) Mouse DNA sequence from clone RP23-274J5 on chrom...    44   9.0    1
(AC192065) Pan troglodytes BAC clone CH251-274G4 from chromo...    44   9.0    1
(AC147103) Pan troglodytes BAC clone RP43-31L11 from chromos...    44   9.0    1
(AC117838) Caenorhabditis briggsae cosmid CB005E21, complete...    44   9.0    1
(AC116957) Dictyostelium discoideum chromosome 2 map 1685067...    44   9.0    1
(BC104944) Homo sapiens phosphorylase kinase, alpha 1 (muscl...    44   9.0    1
(AC106719) Homo sapiens 3p BAC RP11-12J13 (Roswell Park Canc...    44   9.0    1
(AC105443) Homo sapiens chromosome 7 clone RP11-533N5, compl...    44   9.0    1
(AC147276) Pan troglodytes chromosome UNK clone RP43-107K22,...    44   9.0    1
(CU914217) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   9.0    1
(CU633496) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   9.0    1
(CU570849) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   9.0    1
(CU468578) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   9.0    1
(CU137687) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    44   9.0    1
(AC210463) Oryza glaberrima clone OG_BBa0033K15, *** SEQUENC...    44   9.0    1
(AC208558) Zea mays chromosome 6 clone CH201-491C8; ZMMBBc04...    44   9.0    1
(AC181996) Myotis lucifugus clone CH235-341F15, WORKING DRAF...    44   9.0    1

>(BJ445429) Dictyostelium discoideum cDNA clone:ddv59n11, 3' end,
           single read.
          Length = 781

 Score =  997 bits (503), Expect(3) = 0.0
 Identities = 503/503 (100%)
 Strand = Plus / Minus


Query: 123 caattatcaccaattagagatattaatgaaggtatttttataacattagcacaaactatg 182
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 777 caattatcaccaattagagatattaatgaaggtatttttataacattagcacaaactatg 718


Query: 183 agtatgatgggatatttcaataatgttagtaatgatccctcaaagaaaactttgaaatat 242
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 717 agtatgatgggatatttcaataatgttagtaatgatccctcaaagaaaactttgaaatat 658


Query: 243 agtcaatttttagaaaatgtttcaaatactaaattacaagaaccaactttacttttaatt 302
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 657 agtcaatttttagaaaatgtttcaaatactaaattacaagaaccaactttacttttaatt 598


Query: 303 gaattattaagatctggttcttttacttttgaaagattaaattttattccaaaaccaact 362
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 597 gaattattaagatctggttcttttacttttgaaagattaaattttattccaaaaccaact 538


Query: 363 tttgatggtccaccttcaaaaccatctgttttcataatctctcgagttttaagtttaatt 422
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 537 tttgatggtccaccttcaaaaccatctgttttcataatctctcgagttttaagtttaatt 478


Query: 423 ccaagtcaattggataatacaccatggggtggaccaattgatcatgatttaatgggtttc 482
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 477 ccaagtcaattggataatacaccatggggtggaccaattgatcatgatttaatgggtttc 418


Query: 483 catgaaattacacgtactctttacaaatcattaagaaatcttattgaaatgactgcatta 542
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 417 catgaaattacacgtactctttacaaatcattaagaaatcttattgaaatgactgcatta 358


Query: 543 tctcactttttaactcatagaattgtattaccaccaccagagtactttacattttcaaca 602
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 357 tctcactttttaactcatagaattgtattaccaccaccagagtactttacattttcaaca 298


Query: 603 agattaccatttttccttcaacc 625
           |||||||||||||||||||||||
Sbjct: 297 agattaccatttttccttcaacc 275

 Score =  381 bits (192), Expect(3) = 0.0
 Identities = 198/199 (99%)
 Strand = Plus / Minus


Query: 702 tcccaaatttcacaaatatcaaagaggatttggctttagcttctcaattttgggatactg 761
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 200 tcccaaatttcacaaatatcaaagaggatttggctttagcttctcaattttgggatactg 141


Query: 762 catttaagattgtcaccgccattcacaacgaaggtaacattattagcaaaacaatttatg 821
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 140 catttaagattgtcaccaccattcacaacgaaggtaacattattagcaaaacaatttatg 81


Query: 822 aagcttttgttgaagcagacaaagaaggagagaaataagaaaaactttaattaggnaaaa 881
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 80  aagcttttgttgaagcagacaaagaaggagagaaataagaaaaactttaattaggnaaaa 21


Query: 882 aattcaatcaaaatttgtt 900
           |||||||||||||||||||
Sbjct: 20  aattcaatcaaaatttgtt 2

 Score =  151 bits (76), Expect(3) = 0.0
 Identities = 76/76 (100%)
 Strand = Plus / Minus


Query: 625 ccaagttcaagtatgggtcttttagttaaaggtcttttattagagaatttatcattggaa 684
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 276 ccaagttcaagtatgggtcttttagttaaaggtcttttattagagaatttatcattggaa 217


Query: 685 caattggaagagattt 700
           ||||||||||||||||
Sbjct: 216 caattggaagagattt 201

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 1,035,562,273
Number of extensions: 63175347
Number of successful extensions: 5289880
Number of sequences better than 10.0: 156
Length of query: 900
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 876
Effective length of database: 97,308,875,965
Effective search space: 85242575345340
Effective search space used: 85242575345340
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7. 3
Homology vs Protein 
Query= Contig-U12408-1 (Contig-U12408-1Q) /CSM_Contig/Contig-U12408-1Q.Seq.d
         (900 letters)

Database: nrp_B
           3,236,559 sequences; 1,051,180,864 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC007863_4(AC007863|pid:none) Trypanosoma brucei chromosome 6 cl...    45   2e-05
AM502248_392(AM502248|pid:none) Leishmania infantum chromosome 30.     50   1e-04
CT005267_366(CT005267|pid:none) Leishmania major strain Friedlin...    50   1e-04
AE017350_227(AE017350|pid:none) Cryptococcus neoformans var. neo...    47   0.001
CU640366_1111(CU640366|pid:none) Podospora anserina genomic DNA ...    33   3.3

>AC007863_4(AC007863|pid:none) Trypanosoma brucei chromosome 6 clone
           RPCI93-26G9, complete sequence.
          Length = 735

 Score = 45.1 bits (105), Expect(2) = 2e-05
 Identities = 39/163 (23%), Positives = 65/163 (39%), Gaps = 5/163 (3%)
 Frame = +3

Query: 168 LAQTMSMMGYFNNVSND-----PSKKTLKYSQFLENVSNTKXXXXXXXXXXXXRSGSFTF 332
           L Q++ ++GY  + + D      S +   + + L+  S               R+ + +
Sbjct: 489 LLQSLDLLGYLTHETQDLHEEGQSSEPSTFGRALQLCSVPTLSEYTVLLIELARTNAIST 548

Query: 333 ERLNFIPKPTFDGPPSKPSVFIISRVLSLIPSQLDNTPWGGPIDHDLMGFHEITRTLYKS 512
           E      +        +  VF  SRVLS+IP  +   PW  PID +L  F  ++R + +S
Sbjct: 549 EPFRITTEEVSPRDTPRDIVFA-SRVLSIIPLNVSG-PWTAPIDAELAAFSMLSRMISRS 606

Query: 513 LRNLIEMTALSHFLTHRIVLPPPEYFTFSTRLPFFLQPKFKYG 641
           +R L+E      F   R  +P          LPF    +F  G
Sbjct: 607 IRQLLEAITTLMFSKGRTHVPLHRIGEIQRLLPFSTPVEFGCG 649

 Score = 26.9 bits (58), Expect(2) = 2e-05
 Identities = 11/32 (34%), Positives = 17/32 (53%)
 Frame = +2

Query: 704 PNFTNIKEDLALASQFWDTAFKIVTAIHNEGN 799
           P  T ++ DLA    FWD A +++  I  + N
Sbjct: 671 PECTYLRHDLATLFYFWDLAVQVLQRIETKEN 702

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: 3236559
Number of Hits to DB: 1,262,704,113
Number of extensions: 23547916
Number of successful extensions: 59569
Number of sequences better than 10.0: 5
Number of HSP's gapped: 59563
Number of HSP's successfully gapped: 7
Length of query: 300
Length of database: 1,051,180,864
Length adjustment: 128
Effective length of query: 172
Effective length of database: 636,901,312
Effective search space: 109547025664
Effective search space used: 109547025664
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: 0.49  gvh: 0.27  alm: 0.40  top: 0.53  tms: 0.00  mit: 0.30  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 

	 48.0 %: nuclear
	 32.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U12408-1 is nuc
VS (DIR, S) 0
VH (FL, L) 8
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0