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Dicty_cDB
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U10709-1
Contig ID Contig-U10709-1
Contig update 2002.12.18
Contig sequence 
>Contig-U10709-1 (Contig-U10709-1Q) /CSM_Contig/Contig-U10709-1Q.Seq.d
ATTAGTAACACAGACATTGGTAACACGAATTTATTACCACCATCACCATT
TGCAGTACCATTGATTCAATTGTTCTATTCACCAGATTTACACGAATCAG
TATCACGTTCAATGAAAGAGACAATCGCCAACTTTTGTGTGTTTTTACGT
GGTTCAGTGGAATTTATCGAGTCGTTCATATCATTGATGTTACCAATTTA
CAAGAAATGTATCATCGAATGTAAGAAACATATCCTTTTATCATCATTTA
GTATATTTTCATCGACTGCAGTGGGTCCATTACTATTGTCAACCAACGCC
GCTGAGATCGTGATGGATACTATCACAGAGTATTTTAGTAAACATTTTTA
TATTAGAGATGAATTCATTTCACCATCATCATCAGATTCAAAGTCAAAGA
AAAAGAGATCATTACGTTTCAAAGATCCTTACCTTTATCCACAATTTAAA
CAATTGACAAAATTACATGAAACACCTTTAGTCACCCAAGTATTACGTAC
CGATATCTCTTTTATACTTGGTAATCAACCCGTTGCAAAGAGTGTCGTTG
AGTCTAAACATCTTCTTTCCCTTTGGATCAATATGATTGCAATCGCTCAA
GGTATGAATCCAAATGTTA----------ATGACATTACAAACTGTCGTT
TATCAAAGTTTACATTATCAAAAGTATTTCGATTTAGATATTTTCTTAAT
TCAAATCGGTGCTGCAATTATGGGTTCAAATCAATTCATTCAACATGCTA
TCAATATCTATAATCTTGAAGATTGGTTTGAAATTGAACCTTTTAATGGT
TCATTAAATAAATCAACTGAGGGCACTCCTACTACCACCTCATCACAACC
ACCTTCAACTCCTTCAAAACAAACTTCATTACGTAATAGTGCTGGTACTG
TACCAACCACTCCTTCTCAATCTTCTTCAACTATAGTTCCAACTTTAGAT
ACAATTGGTGAAACTACCACTACTACTACCACCACAGCAACAACTACCAC
CACCACTGATGGTATAATTACAGAACCAAAAAAAGAAACTAAAGAAGAGA
AAAAAATTAGAAAAGAAAAACAAAAGATTCAAGAAGATTTACAAAAGAGA
AAAGGTTTAGCAGAGGATTTCTTACAAAATGTTATTATGTTTTCAACAAA
TAAATTAATGTGTGGTATGACAGAGGATCAAGTAATTAGAAAGGAGTTAA
TTCATAGATTATGTTTAGGTGATAATACTCATAGTCAA
Gap gap included
Contig length 1228
Chromosome number (1..6, M) 4
Chromosome length 5430582
Start point 757921
End point 759149
Strand (PLUS/MINUS) PLUS
Number of clones 2
Number of EST 3
Link to clone list U10709
List of clone(s) 

est1=AFA734F,1,620
est2=AHF794F,621,1229
est3=AFA734Z,688,1047
Translated Amino Acid sequence 
ISNTDIGNTNLLPPSPFAVPLIQLFYSPDLHESVSRSMKETIANFCVFLRGSVEFIESFI
SLMLPIYKKCIIECKKHILLSSFSIFSSTAVGPLLLSTNAAEIVMDTITEYFSKHFYIRD
EFISPSSSDSKSKKKRSLRFKDPYLYPQFKQLTKLHETPLVTQVLRTDISFILGNQPVAK
SVVESKHLLSLWINMIAIAQGMNPNV---

---MTLQTVVYQSLHYQKYFDLDIFLIQIGAAIMGSNQFIQHAINIYNLEDWFEIEPFNG
SLNKSTEGTPTTTSSQPPSTPSKQTSLRNSAGTVPTTPSQSSSTIVPTLDTIGETTTTTT
TTATTTTTTDGIITEPKKETKEEKKIRKEKQKIQEDLQKRKGLAEDFLQNVIMFSTNKLM
CGMTEDQVIRKELIHRLCLGDNTHSQ
Translated Amino Acid sequence (All Frames) 
Frame A:
ISNTDIGNTNLLPPSPFAVPLIQLFYSPDLHESVSRSMKETIANFCVFLRGSVEFIESFI
SLMLPIYKKCIIECKKHILLSSFSIFSSTAVGPLLLSTNAAEIVMDTITEYFSKHFYIRD
EFISPSSSDSKSKKKRSLRFKDPYLYPQFKQLTKLHETPLVTQVLRTDISFILGNQPVAK
SVVESKHLLSLWINMIAIAQGMNPNV---

---MTLQTVVYQSLHYQKYFDLDIFLIQIGAAIMGSNQFIQHAINIYNLEDWFEIEPFNG
SLNKSTEGTPTTTSSQPPSTPSKQTSLRNSAGTVPTTPSQSSSTIVPTLDTIGETTTTTT
TTATTTTTTDGIITEPKKETKEEKKIRKEKQKIQEDLQKRKGLAEDFLQNVIMFSTNKLM
CGMTEDQVIRKELIHRLCLGDNTHSQ

Frame B:
lvtqtlvtriyyhhhhlqyh*fncsihqiytnqyhvq*krqsptfvcfyvvqwnlssrsy
h*cyqftrnvssnvrnisfyhhlvyfhrlqwvhyycqptplrs*wilsqsilvnifilem
nsfhhhhqiqsqrkrdhyvskiltfihnlnn*qnymkhl*spkyyvpisllylvinplqr
vslslniffpfgsi*lqslkv*iqml---

---*hyklsfikvyiiksisi*ifs*fksvlqlwvqinsfnmlsisiilkiglklnllmv
h*inqlralllpphhnhlqllqnklhyvivlvlyqplllnllql*fql*iqlvklplllp
pqqqlppplmv*lqnqkkklkkrkklekknkrfkkiykrekv*qrisykmllcfqqin*c
vv*qrik*lers*fidyv*viiliv

Frame C:
**hrhw*hefittiticstidsivlftrftrisitfnerdnrqllcvftwfsgiyrvvhi
idvtnlqemyhrm*etypfiii*yifidcsgsitivnqrr*drdgyyhrvf**tfly*r*
ihftiiirfkvkekeiitfqrslplsti*tidkit*ntfshpsityrylfytw*strcke
cr*v*tssfpldqydcnrsryeskc---

---ditncrlskftlskvfrfryflnsnrccnygfksihstcyqyl*s*rlv*n*tf*wf
ik*in*ghsyyhlitttfnsfktnfit**cwyctnhsfsiffnyssnfrynw*nyhyyyh
hsnnyhhh*wynyrtkkrn*rrekn*krktkdsrrftkekrfsrgfltkcyyvfnk*inv
wydrgssn*kgvns*imfr**ys*s
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U10709-1 (Contig-U10709-1Q)
/CSM_Contig/Contig-U10709-1Q.Seq.d
         (1238 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U10709-1 (Contig-U10709-1Q) /CSM_Contig/Conti...  1976  0.0
Contig-U14656-1 (Contig-U14656-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U14519-1 (Contig-U14519-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U11441-1 (Contig-U11441-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U02520-1 (Contig-U02520-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U13956-1 (Contig-U13956-1Q) /CSM_Contig/Conti...    40  0.006
Contig-U12838-1 (Contig-U12838-1Q) /CSM_Contig/Conti...    40  0.006
Contig-U12770-1 (Contig-U12770-1Q) /CSM_Contig/Conti...    40  0.006
Contig-U12008-1 (Contig-U12008-1Q) /CSM_Contig/Conti...    40  0.006
Contig-U11408-1 (Contig-U11408-1Q) /CSM_Contig/Conti...    40  0.006

>Contig-U10709-1 (Contig-U10709-1Q) /CSM_Contig/Contig-U10709-1Q.Seq.d
          Length = 1238

 Score = 1976 bits (997), Expect = 0.0
 Identities = 1027/1027 (100%)
 Strand = Plus / Plus

                                                                        
Query: 1    attagtaacacagacattggtaacacgaatttattaccaccatcaccatttgcagtacca 60
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1    attagtaacacagacattggtaacacgaatttattaccaccatcaccatttgcagtacca 60

                                                                        
Query: 61   ttgattcaattgttctattcaccagatttacacgaatcagtatcacgttcaatgaaagag 120
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61   ttgattcaattgttctattcaccagatttacacgaatcagtatcacgttcaatgaaagag 120

                                                                        
Query: 121  acaatcgccaacttttgtgtgtttttacgtggttcagtggaatttatcgagtcgttcata 180
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121  acaatcgccaacttttgtgtgtttttacgtggttcagtggaatttatcgagtcgttcata 180

                                                                        
Query: 181  tcattgatgttaccaatttacaagaaatgtatcatcgaatgtaagaaacatatcctttta 240
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181  tcattgatgttaccaatttacaagaaatgtatcatcgaatgtaagaaacatatcctttta 240

                                                                        
Query: 241  tcatcatttagtatattttcatcgactgcagtgggtccattactattgtcaaccaacgcc 300
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241  tcatcatttagtatattttcatcgactgcagtgggtccattactattgtcaaccaacgcc 300

                                                                        
Query: 301  gctgagatcgtgatggatactatcacagagtattttagtaaacatttttatattagagat 360
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301  gctgagatcgtgatggatactatcacagagtattttagtaaacatttttatattagagat 360

                                                                        
Query: 361  gaattcatttcaccatcatcatcagattcaaagtcaaagaaaaagagatcattacgtttc 420
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361  gaattcatttcaccatcatcatcagattcaaagtcaaagaaaaagagatcattacgtttc 420

                                                                        
Query: 421  aaagatccttacctttatccacaatttaaacaattgacaaaattacatgaaacaccttta 480
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421  aaagatccttacctttatccacaatttaaacaattgacaaaattacatgaaacaccttta 480

                                                                        
Query: 481  gtcacccaagtattacgtaccgatatctcttttatacttggtaatcaacccgttgcaaag 540
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481  gtcacccaagtattacgtaccgatatctcttttatacttggtaatcaacccgttgcaaag 540

                                                                        
Query: 541  agtgtcgttgagtctaaacatcttctttccctttggatcaatatgattgcaatcgctcaa 600
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541  agtgtcgttgagtctaaacatcttctttccctttggatcaatatgattgcaatcgctcaa 600

                                                                        
Query: 601  ggtatgaatccaaatgttannnnnnnnnnatgacattacaaactgtcgtttatcaaagtt 660
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601  ggtatgaatccaaatgttannnnnnnnnnatgacattacaaactgtcgtttatcaaagtt 660

                                                                        
Query: 661  tacattatcaaaagtatttcgatttagatattttcttaattcaaatcggtgctgcaatta 720
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 661  tacattatcaaaagtatttcgatttagatattttcttaattcaaatcggtgctgcaatta 720

                                                                        
Query: 721  tgggttcaaatcaattcattcaacatgctatcaatatctataatcttgaagattggtttg 780
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 721  tgggttcaaatcaattcattcaacatgctatcaatatctataatcttgaagattggtttg 780

                                                                        
Query: 781  aaattgaaccttttaatggttcattaaataaatcaactgagggcactcctactaccacct 840
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 781  aaattgaaccttttaatggttcattaaataaatcaactgagggcactcctactaccacct 840

                                                                        
Query: 841  catcacaaccaccttcaactccttcaaaacaaacttcattacgtaatagtgctggtactg 900
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 841  catcacaaccaccttcaactccttcaaaacaaacttcattacgtaatagtgctggtactg 900

                                                                        
Query: 901  taccaaccactccttctcaatcttcttcaactatagttccaactttagatacaattggtg 960
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 901  taccaaccactccttctcaatcttcttcaactatagttccaactttagatacaattggtg 960

                                                                        
Query: 961  aaactaccactactactaccaccacagcaacaactaccaccaccactgatggtataatta 1020
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 961  aaactaccactactactaccaccacagcaacaactaccaccaccactgatggtataatta 1020

                   
Query: 1021 cagaacc 1027
            |||||||
Sbjct: 1021 cagaacc 1027


 Score =  266 bits (134), Expect = 5e-71
 Identities = 134/134 (100%)
 Strand = Plus / Plus

                                                                        
Query: 1105 gtttagcagaggatttcttacaaaatgttattatgttttcaacaaataaattaatgtgtg 1164
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1105 gtttagcagaggatttcttacaaaatgttattatgttttcaacaaataaattaatgtgtg 1164

                                                                        
Query: 1165 gtatgacagaggatcaagtaattagaaaggagttaattcatagattatgtttaggtgata 1224
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1165 gtatgacagaggatcaagtaattagaaaggagttaattcatagattatgtttaggtgata 1224

                          
Query: 1225 atactcatagtcaa 1238
            ||||||||||||||
Sbjct: 1225 atactcatagtcaa 1238


>Contig-U14656-1 (Contig-U14656-1Q) /CSM_Contig/Contig-U14656-1Q.Seq.d
          Length = 425

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

                                
Query: 966 accactactactaccaccaca 986
           |||||||||||||||||||||
Sbjct: 206 accactactactaccaccaca 186


>Contig-U14519-1 (Contig-U14519-1Q) /CSM_Contig/Contig-U14519-1Q.Seq.d
          Length = 1452

 Score = 42.1 bits (21), Expect = 0.001
 Identities = 33/37 (89%)
 Strand = Plus / Plus

                                                
Query: 963 actaccactactactaccaccacagcaacaactacca 999
           |||||||||||||||||||| ||| | |||| |||||
Sbjct: 274 actaccactactactaccactacaactacaaatacca 310


  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: 18,505
Number of Sequences: 6905
Number of extensions: 18505
Number of successful extensions: 2288
Number of sequences better than 10.0: 396
length of query: 1238
length of database: 5,674,871
effective HSP length: 16
effective length of query: 1222
effective length of database: 5,564,391
effective search space: 6799685802
effective search space used: 6799685802
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 2008.11.21
Homology vs DNA 
Query= Contig-U10709-1 (Contig-U10709-1Q) /CSM_Contig/Contig-U10709-1Q.Seq.d
         (1238 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

(BJ325789) Dictyostelium discoideum cDNA clone:dda2d09, 5' e...  1227   0.0    1
(BJ333483) Dictyostelium discoideum cDNA clone:dda42l23, 5' ...   789   0.0    2
(BJ340478) Dictyostelium discoideum cDNA clone:dda2d09, 3' e...   634   e-177  1
(AC179233) Strongylocentrotus purpuratus clone R3-1106L24, W...    46   6e-04  2
(AP006309) Homo sapiens genomic DNA, chromosome 3 clone:RP11...    46   0.002  2
(DH480527) Monosiga ovata DNA, fosmid clone: MOF-033G07, gen...    46   0.003  2
(DH477507) Monosiga ovata DNA, fosmid clone: MOF-028B05, gen...    46   0.003  2
(DH464450) Monosiga ovata DNA, fosmid clone: MOF-005B22, gen...    46   0.003  2
(DH462889) Monosiga ovata DNA, fosmid clone: MOF-002I14, gen...    46   0.003  2
(AC116986) Dictyostelium discoideum chromosome 2 map 2234041...    38   0.005  13
(AC206753) Zea mays chromosome 2 clone ZMMBBb-566G2; ZMMBBb0...    36   0.009  2
(DH495319) Monosiga ovata DNA, fosmid clone: MOF-059D18, gen...    38   0.011  2
(DX871512) ZMMBLf0001F18.f ZMMBLf Zea mays genomic clone ZMM...    36   0.011  2
(CT954285) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    54   0.013  1
(CT827825) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    54   0.013  1
(AC116960) Dictyostelium discoideum chromosome 2 map complem...    36   0.018  12
(AC131653) Mus musculus BAC clone RP23-220N8 from chromosome...    44   0.025  5
(X96869) D.discoideum dokA gene.                                   46   0.026  2
(AC178911) Strongylocentrotus purpuratus clone R3-3115A3, WO...    38   0.032  2
(AC180846) Strongylocentrotus purpuratus clone R3-3070P10, W...    42   0.033  2
(BC157703) Xenopus tropicalis cDNA clone MGC:181576 IMAGE:78...    42   0.040  2
(BC168830) Xenopus tropicalis hypothetical protein LOC100135...    42   0.040  2
(BC161188) Xenopus tropicalis cDNA clone MGC:185464 IMAGE:78...    42   0.040  2
(DY889917) CeleSEQ6898 Cunninghamella elegans pBluescript (E...    40   0.041  2
(DY885743) CeleSEQ1153 Cunninghamella elegans pBluescript (E...    40   0.041  2
(DT418361) JGI_CABJ1566.fwd NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT426337) JGI_CABJ6294.fwd NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT430155) JGI_CABJ8386.fwd NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT432956) JGI_CABJ9910.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT435822) JGI_CABJ11449.fwd NIH_XGC_tropSki1 Xenopus (Silur...    42   0.041  2
(DT429485) JGI_CABJ8025.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT429091) JGI_CABJ7810.fwd NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DR879237) JGI_CABJ618.fwd NIH_XGC_tropSki1 Xenopus (Siluran...    42   0.041  2
(DT433639) JGI_CABJ10274.fwd NIH_XGC_tropSki1 Xenopus (Silur...    42   0.041  2
(DT421846) JGI_CABJ3455.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT418915) JGI_CABJ1865.fwd NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT418360) JGI_CABJ1566.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT422996) JGI_CABJ4089.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT429090) JGI_CABJ7810.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT422202) JGI_CABJ3657.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT432393) JGI_CABJ9602.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT424708) JGI_CABJ5022.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT429312) JGI_CABJ7935.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DR880673) JGI_CABJ1405.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT434897) JGI_CABJ10951.rev NIH_XGC_tropSki1 Xenopus (Silur...    42   0.041  2
(DT435821) JGI_CABJ11449.rev NIH_XGC_tropSki1 Xenopus (Silur...    42   0.041  2
(DR878907) JGI_CABJ438.rev NIH_XGC_tropSki1 Xenopus (Siluran...    42   0.041  2
(DT426336) JGI_CABJ6294.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT426748) JGI_CABJ6525.fwd NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT420579) JGI_CABJ2776.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT418914) JGI_CABJ1865.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DT433942) JGI_CABJ10442.rev NIH_XGC_tropSki1 Xenopus (Silur...    42   0.041  2
(DT419147) JGI_CABJ1993.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(EL712039) CBSU8493.rev NICHD_XGC_tropLimb_m Xenopus (Silura...    42   0.041  2
(DT423267) JGI_CABJ4241.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(DR879236) JGI_CABJ618.rev NIH_XGC_tropSki1 Xenopus (Siluran...    42   0.041  2
(CF523607) AGENCOURT_15516015 NICHD_XGC_Swb1 Xenopus (Silura...    42   0.041  2
(DT426793) JGI_CABJ6550.rev NIH_XGC_tropSki1 Xenopus (Silura...    42   0.041  2
(CV022469) Rasgscb0046 Salivary Gland 4th instar 3rd period ...    42   0.041  2
(CK808354) Rasgsc0915 Salivary Gland 4th instar 3rd period (...    42   0.041  2
(DT418677) JGI_CABJ1735.fwd NIH_XGC_tropSki1 Xenopus (Silura...    42   0.042  2
(EF069401) Batrachochytrium dendrobatidis strain JP005 varia...    40   0.042  2
(EF069400) Batrachochytrium dendrobatidis strain JAM059 vari...    40   0.042  2
(BV725104) 00.202576.073G02 Xenopus tropicalis (Nigerian str...    42   0.042  2
(FE828156) CCAG41386.g1 CCAG Petrolisthes cinctipes heart, g...    40   0.042  2
(AP007171) Aspergillus oryzae RIB40 genomic DNA, SC011.            38   0.10   2
(AC095424) Rattus norvegicus clone CH230-7A8, *** SEQUENCING...    48   0.12   2
(AC127156) Rattus norvegicus clone CH230-7B10, *** SEQUENCIN...    48   0.12   2
(AC112086) Rattus norvegicus clone CH230-332D11, *** SEQUENC...    48   0.12   2
(AC119130) Rattus norvegicus clone CH230-414I23, *** SEQUENC...    48   0.12   2
(AC098493) Rattus norvegicus clone CH230-20E13, WORKING DRAF...    38   0.12   2
(AC129051) Rattus norvegicus clone CH230-89P7, *** SEQUENCIN...    46   0.12   2
(CR749744) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    38   0.12   2
(CR925795) Zebrafish DNA sequence from clone DKEY-25C9 in li...    38   0.12   2
(AC116768) Mus musculus chromosome 8, clone RP23-395P10, com...    38   0.12   2
(AL672274) Mouse DNA sequence from clone RP23-351G20 on chro...    38   0.12   2
(AC177989) Strongylocentrotus purpuratus clone R3-3051J10, W...    40   0.12   2
(AC180837) Strongylocentrotus purpuratus clone R3-3069N16, W...    40   0.12   2
(AC119801) Mus musculus, clone RP23-54N13, complete sequence.      44   0.12   6
(AC146997) Arbacia punctulata clone BAP-144G2, WORKING DRAFT...    48   0.12   2
(AC176444) Strongylocentrotus purpuratus clone R3-3068D20, W...    38   0.12   2
(AC177681) Strongylocentrotus purpuratus clone R3-1014B2, WO...    40   0.12   2
(AC180109) Strongylocentrotus purpuratus clone R3-4007G11, W...    38   0.12   2
(AC201523) Strongylocentrotus purpuratus clone R3-3090A13, W...    40   0.12   2
(AC168750) Strongylocentrotus purpuratus clone R3-3004P11, W...    34   0.12   2
(AC226866) Monodelphis domestica clone VMRC18-114O7, WORKING...    38   0.12   2
(AC180625) Strongylocentrotus purpuratus clone R3-3090F9, WO...    38   0.12   2
(AC179400) Strongylocentrotus purpuratus clone R3-60K13, WOR...    38   0.12   2
(AC175914) Strongylocentrotus purpuratus clone R3-12O17, WOR...    40   0.12   2
(CR751563) Zebrafish DNA sequence from clone CH211-203C10 in...    38   0.13   2
(AB253466) Chlamys farreri DNA, microsatellite sequence, clo...    38   0.13   3
(DJ060365) Method and nucleic acids for the improved treatme...    38   0.14   2
(CS124712) Sequence 398 from Patent WO2005059172.                  38   0.14   2
(DJ402665) Methods and nucleic acids for analyses of colo re...    38   0.15   2
(DJ402737) Methods and nucleic acids for analyses of colo re...    38   0.15   2
(AY764183) Aplysia californica syntaxin mRNA, complete cds.        40   0.15   2
(BJ348847) Dictyostelium discoideum cDNA clone:dda34f18, 3' ...    38   0.15   2
(CK814805) Rasgsc5517 Salivary Gland 4th instar 3rd period (...    40   0.15   2
(DH495791) Monosiga ovata DNA, fosmid clone: MOF-060A24, gen...    40   0.15   2
(BJ383006) Dictyostelium discoideum cDNA clone:ddc46f15, 3' ...    38   0.15   2

>(BJ325789) Dictyostelium discoideum cDNA clone:dda2d09, 5' end,
           single read.
          Length = 620

 Score = 1227 bits (619), Expect = 0.0
 Identities = 619/619 (100%)
 Strand = Plus / Plus


Query: 1   attagtaacacagacattggtaacacgaatttattaccaccatcaccatttgcagtacca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   attagtaacacagacattggtaacacgaatttattaccaccatcaccatttgcagtacca 60


Query: 61  ttgattcaattgttctattcaccagatttacacgaatcagtatcacgttcaatgaaagag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  ttgattcaattgttctattcaccagatttacacgaatcagtatcacgttcaatgaaagag 120


Query: 121 acaatcgccaacttttgtgtgtttttacgtggttcagtggaatttatcgagtcgttcata 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 acaatcgccaacttttgtgtgtttttacgtggttcagtggaatttatcgagtcgttcata 180


Query: 181 tcattgatgttaccaatttacaagaaatgtatcatcgaatgtaagaaacatatcctttta 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 tcattgatgttaccaatttacaagaaatgtatcatcgaatgtaagaaacatatcctttta 240


Query: 241 tcatcatttagtatattttcatcgactgcagtgggtccattactattgtcaaccaacgcc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 tcatcatttagtatattttcatcgactgcagtgggtccattactattgtcaaccaacgcc 300


Query: 301 gctgagatcgtgatggatactatcacagagtattttagtaaacatttttatattagagat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 gctgagatcgtgatggatactatcacagagtattttagtaaacatttttatattagagat 360


Query: 361 gaattcatttcaccatcatcatcagattcaaagtcaaagaaaaagagatcattacgtttc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 gaattcatttcaccatcatcatcagattcaaagtcaaagaaaaagagatcattacgtttc 420


Query: 421 aaagatccttacctttatccacaatttaaacaattgacaaaattacatgaaacaccttta 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 aaagatccttacctttatccacaatttaaacaattgacaaaattacatgaaacaccttta 480


Query: 481 gtcacccaagtattacgtaccgatatctcttttatacttggtaatcaacccgttgcaaag 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 gtcacccaagtattacgtaccgatatctcttttatacttggtaatcaacccgttgcaaag 540


Query: 541 agtgtcgttgagtctaaacatcttctttccctttggatcaatatgattgcaatcgctcaa 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 agtgtcgttgagtctaaacatcttctttccctttggatcaatatgattgcaatcgctcaa 600


Query: 601 ggtatgaatccaaatgtta 619
           |||||||||||||||||||
Sbjct: 601 ggtatgaatccaaatgtta 619

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 1,291,364,025
Number of extensions: 79886086
Number of successful extensions: 6738997
Number of sequences better than 10.0: 529
Length of query: 1238
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 1214
Effective length of database: 97,308,875,965
Effective search space: 118132975421510
Effective search space used: 118132975421510
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 6.28
Homology vs Protein 
Query= Contig-U10709-1 (Contig-U10709-1Q) /CSM_Contig/Contig-U10709-1Q.Seq.d
         (1238 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

DQ924536_1(DQ924536|pid:none) Mus musculus ubiquitin ligase (Ubr...    40   0.13
(Q5U430) RecName: Full=E3 ubiquitin-protein ligase UBR3;        ...    40   0.13
(Q6ZT12) RecName: Full=E3 ubiquitin-protein ligase UBR3;        ...    40   0.13
AY094815_1(AY094815|pid:none) Drosophila melanogaster LD31957 fu...    38   0.85
(O70481) RecName: Full=E3 ubiquitin-protein ligase UBR1;        ...    35   5.5
AL844548_1(AL844548|pid:none) Mouse DNA sequence from clone RP23...    35   5.5
AK166885_1(AK166885|pid:none) Mus musculus blastocyst blastocyst...    35   5.5
BC090969_1(BC090969|pid:none) Mus musculus ubiquitin protein lig...    35   5.5
CP000682_2155(CP000682|pid:none) Metallosphaera sedula DSM 5348,...    34   9.4

>DQ924536_1(DQ924536|pid:none) Mus musculus ubiquitin ligase (Ubr3)
            mRNA, complete cds.
          Length = 1889

 Score = 40.4 bits (93), Expect = 0.13
 Identities = 15/50 (30%), Positives = 32/50 (64%)
 Frame = +3

Query: 1086 DLQKRKGLAEDFLQNVIMFSTNKLMCGMTEDQVIRKELIHRLCLGDNTHS 1235
            D++  + + E  L  +++  + +L  GM++D ++R E++ +LC+ D THS
Sbjct: 754  DVEHERSMLEGALTFLVILLSLRLHLGMSDDDILRAEMVAQLCMNDRTHS 803

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: 1,565,642,522
Number of extensions: 27219478
Number of successful extensions: 54436
Number of sequences better than 10.0: 9
Number of HSP's gapped: 54283
Number of HSP's successfully gapped: 10
Length of query: 412
Length of database: 1,040,966,779
Length adjustment: 131
Effective length of query: 281
Effective length of database: 621,205,444
Effective search space: 174558729764
Effective search space used: 174558729764
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: 0.75  gvh: 0.50  alm: 0.37  top: 0.53  tms: 0.00  mit: 0.22  mip: 0.00
 nuc: 0.10  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
	 36.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: Golgi

>> prediction for Contig-U10709-1 is nuc
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 1
AF (FL, S) 1
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