NBDC - アーカイブトップ - ヘルプ
データベースの説明 | データ項目の説明 | 利用許諾 | ヘルプ
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
Description of this DB | Description of data items | Download | License
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U03903-1
Contig ID Contig-U03903-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U03903-1 (Contig-U03903-1Q) /CSM_Contig/Contig-U03903-1Q.Seq.d
CTTTTTCGTTTCAAGTGCCCAAAGAGAATGTATGAATTGTAAGACTAAAC
CAGAGTTTTCTGCAGTTGGCTTACTTTGTAATCAATTGGTATGCTCTCAT
AGGAGCGAATGTTGTAATGATGATGATAAACATTATAACATATCCGAAGG
CTATAAACATACTTTGAAATGTGGCAGTTTTAAGGTTGGTTTCTTTTTAG
AAACTAAAGCTCCTCGAATCGATATCCTACGTGATCATAGAAAGAGTATT
TTTAATAATGGTTACCTCGATCAATATGGTGAATCCGATCCAACTTTGGA
TCGTGGTAAACCATTATTAAGAAATGATAATAACTTTCAAGATCTTTGGA
ATTGTTGGATTACTCATTCAATTGAGGATCGTTTCCTTTCAAACTCAACA
CTTTTTTCTAGAACTTTTTAAATATATAAATATATAAAAAAAAAATAAAA
ATAAAAAATAAAAAAAAAATAAAAAAAAAAATTAGATTTTTTTTTTTGGA
AGTGTTTATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
A
Gap no gap
Contig length 551
Chromosome number (1..6, M) 5
Chromosome length 5062330
Start point 1554455
End point 1555006
Strand (PLUS/MINUS) PLUS
Number of clones 2
Number of EST 2
Link to clone list U03903
List of clone(s) 

est1=VSC463E,1,552
est2=SLC188E,239,515
Translated Amino Acid sequence 
FFVSSAQRECMNCKTKPEFSAVGLLCNQLVCSHRSECCNDDDKHYNISEGYKHTLKCGSF
KVGFFLETKAPRIDILRDHRKSIFNNGYLDQYGESDPTLDRGKPLLRNDNNFQDLWNCWI
THSIEDRFLSNSTLFSRTF*iykyikkk*k*kikkk*kkkldfffwkcllkkkkkkkkkk
kkk
Translated Amino Acid sequence (All Frames) 
Frame A:
lfrfkcpkrmyel*d*trvfcswltl*sigmls*erml*****tl*hirrl*tyfemwqf
*gwflfrn*sssnrypt*s*keyf**wlprsiw*irsnfgsw*tiikk***lsrslelld
ysfn*gsfpfklntff*nflni*iykkkikiknkkkikkkirffflevfikkkkkkkkkk
kkk


Frame B:
FFVSSAQRECMNCKTKPEFSAVGLLCNQLVCSHRSECCNDDDKHYNISEGYKHTLKCGSF
KVGFFLETKAPRIDILRDHRKSIFNNGYLDQYGESDPTLDRGKPLLRNDNNFQDLWNCWI
THSIEDRFLSNSTLFSRTF*iykyikkk*k*kikkk*kkkldfffwkcllkkkkkkkkkk
kkk


Frame C:
fsfqvpkenv*ivrlnqsflqlayfvinwyaliganvvmmminiitypkainil*nvavl
rlvsf*klkllesisyviiervflimvtsinmvnpiqlwivvnhy*emiitfkifgivgl
liqlrivsfqtqhfflelfkyini*kknknkk*kknkkkn*ifffgsvy*kkkkkkkkkk
kkk
own update 2004. 6. 9
Homology vs CSM-cDNA 
Query= Contig-U03903-1 (Contig-U03903-1Q)
/CSM_Contig/Contig-U03903-1Q.Seq.d
         (551 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U03903-1 (Contig-U03903-1Q) /CSM_Contig/Conti...   862  0.0
Contig-U08154-1 (Contig-U08154-1Q) /CSM_Contig/Conti...    42  6e-04
Contig-U13992-1 (Contig-U13992-1Q) /CSM_Contig/Conti...    38  0.010
Contig-U09459-1 (Contig-U09459-1Q) /CSM_Contig/Conti...    38  0.010
Contig-U13864-1 (Contig-U13864-1Q) /CSM_Contig/Conti...    36  0.038
Contig-U11937-1 (Contig-U11937-1Q) /CSM_Contig/Conti...    36  0.038
Contig-U09736-1 (Contig-U09736-1Q) /CSM_Contig/Conti...    36  0.038
Contig-U14725-1 (Contig-U14725-1Q) /CSM_Contig/Conti...    34  0.15
Contig-U14697-1 (Contig-U14697-1Q) /CSM_Contig/Conti...    34  0.15
Contig-U13889-1 (Contig-U13889-1Q) /CSM_Contig/Conti...    34  0.15

>Contig-U03903-1 (Contig-U03903-1Q) /CSM_Contig/Contig-U03903-1Q.Seq.d
          Length = 551

 Score =  862 bits (435), Expect = 0.0
 Identities = 435/435 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   ctttttcgtttcaagtgcccaaagagaatgtatgaattgtaagactaaaccagagttttc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ctttttcgtttcaagtgcccaaagagaatgtatgaattgtaagactaaaccagagttttc 60

                                                                       
Query: 61  tgcagttggcttactttgtaatcaattggtatgctctcataggagcgaatgttgtaatga 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  tgcagttggcttactttgtaatcaattggtatgctctcataggagcgaatgttgtaatga 120

                                                                       
Query: 121 tgatgataaacattataacatatccgaaggctataaacatactttgaaatgtggcagttt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 tgatgataaacattataacatatccgaaggctataaacatactttgaaatgtggcagttt 180

                                                                       
Query: 181 taaggttggtttctttttagaaactaaagctcctcgaatcgatatcctacgtgatcatag 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 taaggttggtttctttttagaaactaaagctcctcgaatcgatatcctacgtgatcatag 240

                                                                       
Query: 241 aaagagtatttttaataatggttacctcgatcaatatggtgaatccgatccaactttgga 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 aaagagtatttttaataatggttacctcgatcaatatggtgaatccgatccaactttgga 300

                                                                       
Query: 301 tcgtggtaaaccattattaagaaatgataataactttcaagatctttggaattgttggat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 tcgtggtaaaccattattaagaaatgataataactttcaagatctttggaattgttggat 360

                                                                       
Query: 361 tactcattcaattgaggatcgtttcctttcaaactcaacacttttttctagaacttttta 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tactcattcaattgaggatcgtttcctttcaaactcaacacttttttctagaacttttta 420

                          
Query: 421 aatatataaatatat 435
           |||||||||||||||
Sbjct: 421 aatatataaatatat 435


 Score = 58.0 bits (29), Expect = 1e-08
 Identities = 29/29 (100%)
 Strand = Plus / Plus

                                        
Query: 482 ttagatttttttttttggaagtgtttatt 510
           |||||||||||||||||||||||||||||
Sbjct: 482 ttagatttttttttttggaagtgtttatt 510


>Contig-U08154-1 (Contig-U08154-1Q) /CSM_Contig/Contig-U08154-1Q.Seq.d
          Length = 1630

 Score = 42.1 bits (21), Expect = 6e-04
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                                 
Query: 415  tttttaaatatataaatatat 435
            |||||||||||||||||||||
Sbjct: 1462 tttttaaatatataaatatat 1482


>Contig-U13992-1 (Contig-U13992-1Q) /CSM_Contig/Contig-U13992-1Q.Seq.d
          Length = 1205

 Score = 38.2 bits (19), Expect = 0.010
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                  
Query: 412 aactttttaaatatataaatata 434
           ||||||||| |||||||||||||
Sbjct: 26  aactttttatatatataaatata 48


 Score = 28.2 bits (14), Expect = 9.4
 Identities = 14/14 (100%)
 Strand = Plus / Plus

                         
Query: 422 atatataaatatat 435
           ||||||||||||||
Sbjct: 138 atatataaatatat 151


  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: 74,300
Number of Sequences: 6905
Number of extensions: 74300
Number of successful extensions: 1578
Number of sequences better than 10.0: 465
length of query: 551
length of database: 5,674,871
effective HSP length: 16
effective length of query: 535
effective length of database: 5,564,391
effective search space: 2976949185
effective search space used: 2976949185
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 14 (28.2 bits)
dna update 2009. 6. 8
Homology vs DNA 
Query= Contig-U03903-1 (Contig-U03903-1Q) /CSM_Contig/Contig-U03903-1Q.Seq.d
         (551 letters)

Database: ddbj_A
           102,105,510 sequences; 101,790,757,118 total letters

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

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

(AU262582) Dictyostelium discoideum vegetative cDNA clone:VS...   862   0.0    1
(AU034472) Dictyostelium discoideum slug cDNA, clone SLC188.      383   e-102  1
(BX322647) Zebrafish DNA sequence from clone DKEYP-86F8 in l...    52   0.023  1
(BV433213) S237P6285FG10.T0 PortugueseWaterDog Canis familia...    48   0.36   1
(AC172080) Bos taurus clone CH240-308N5, WORKING DRAFT SEQUE...    38   0.57   4
(CU570798) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   0.58   2
(AC115570) Rattus norvegicus clone CH230-36M17, WORKING DRAF...    40   0.61   3
(AC184184) Strongylocentrotus purpuratus clone R3-3021D6, WO...    40   1.3    3
(AC168925) Bos taurus clone CH240-236A6, WORKING DRAFT SEQUE...    46   1.4    1
(AC167219) Bos taurus clone CH240-174F20, WORKING DRAFT SEQU...    46   1.4    1
(ET100352) QM0AAB16CG08FM1 CCER1 Citrus clementina genomic c...    46   1.4    1
(ET097143) QM0AAB10CG08FM1 CCER1 Citrus clementina genomic c...    46   1.4    1
(ET079749) QM0AAB8CG08FM1 CCER1 Citrus clementina genomic cl...    46   1.4    1
(ET074765) QM0AAB1BC05FM1 CCER1 Citrus clementina genomic cl...    46   1.4    1
(AC229702) Medicago truncatula clone mth2-61g4, WORKING DRAF...    38   1.9    3
(CT675438) Danio rerio EST, clone ZF_mu_155d19 5'.                 42   2.3    2
(CT675439) Danio rerio EST, clone ZF_mu_155d19 3'.                 42   2.3    2
(DT077622) AGENCOURT_56111680 NIH_ZGC_7 Danio rerio cDNA clo...    42   2.3    2
(BZ083951) lle30d10.b1 B.oleracea002 Brassica oleracea genom...    42   2.4    2
(BV363442) S231P6412RH8.T0 BedlingtonTerrier Canis familiari...    34   3.7    2
(AW958190) EST370260 MAGE resequences, MAGE Homo sapiens cDN...    34   3.7    2
(AC233417) Solanum tuberosum chromosome 1 clone RH066J10, **...    42   4.1    3
(EA698714) Sequence 77593 from patent US 7365185.                  34   4.8    3
(AC137819) Medicago truncatula chromosome 8 clone mth2-21i24...    40   4.8    2
(CU570976) Zebrafish DNA sequence from clone CH211-90H23 in ...    42   4.9    2
(CU137682) Zebrafish DNA sequence from clone DKEY-197A14 in ...    44   5.6    1
(CT573293) Zebrafish DNA sequence from clone DKEY-146D24 in ...    44   5.6    1
(CT027646) Zebrafish DNA sequence from clone CH211-38M6 in l...    44   5.6    1
(BX957339) Zebrafish DNA sequence from clone DKEY-285D11 in ...    44   5.6    1
(BX572080) Zebrafish DNA sequence from clone DKEY-22N17 in l...    44   5.6    1
(BX511256) Zebrafish DNA sequence from clone DKEY-58M10 in l...    44   5.6    1
(BX510320) Zebrafish DNA sequence from clone CH211-117C8 in ...    44   5.6    1
(BV438906) S237P6374FA9.T0 PortugueseWaterDog Canis familiar...    44   5.6    1
(AM456273) Vitis vinifera contig VV79X000559.3, whole genome...    44   5.6    1
(AB189662) Drosophila simulans Obp57d, Obp57e genes for Odor...    44   5.6    1
(AL133318) Human DNA sequence from clone RP11-89L15 on chrom...    44   5.6    1
(CU862028) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   5.6    1
(AC084099) Homo sapiens clone RP11-487O12, WORKING DRAFT SEQ...    44   5.6    1
(AC078964) Homo sapiens chromosome 8 clone RP11-135C3 map 8,...    44   5.6    1
(BX005401) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    44   5.6    1
(AL844509) Plasmodium falciparum chromosome 13.                    44   5.6    1
(AL390202) Human DNA sequence *** SEQUENCING CANCELLED *** f...    44   5.6    1
(AC231327) Monodelphis domestica clone VMRC18-689B3, WORKING...    44   5.6    1
(AC217681) Zea mays chromosome 5 clone CH201-480G22; ZMMBBc0...    44   5.6    1
(AC200729) Zea mays chromosome 5 clone CH201-510J12; ZMMBBc0...    44   5.6    1
(ER430116) 1092963773833 Global-Ocean-Sampling_GS-35-01-01-1...    44   5.6    1
(EJ406917) 1093012100951 Global-Ocean-Sampling_GS-28-01-01-1...    44   5.6    1
(EJ177890) 1092344107700 Global-Ocean-Sampling_GS-27-01-01-1...    44   5.6    1
(CU185458) Equus caballus GSS, BAC clone CH241-336K13, SP6 e...    44   5.6    1
(CT085300) Sus scrofa genomic clone CH242-120N1, genomic sur...    44   5.6    1
(CG189947) PUFZU15TD ZM_0.6_1.0_KB Zea mays genomic clone ZM...    44   5.6    1
(CG189945) PUFZU15TB ZM_0.6_1.0_KB Zea mays genomic clone ZM...    44   5.6    1
(CE065399) tigr-gss-dog-17000322618585 Dog Library Canis lup...    44   5.6    1
(CC626454) OGUFE86TH ZM_0.7_1.5_KB Zea mays genomic clone ZM...    44   5.6    1
(CC603213) OGLBH33TH ZM_0.7_1.5_KB Zea mays genomic clone ZM...    44   5.6    1
(CC375580) PUHHD61TB ZM_0.6_1.0_KB Zea mays genomic clone ZM...    44   5.6    1
(CC295232) CH261-155G14_Sp6.2 CH261 Gallus gallus genomic cl...    44   5.6    1
(AG347328) Mus musculus molossinus DNA, clone:MSMg01-142N01....    44   5.6    1
(EG415554) SAAH-aab38a09.b1 Agen 0058 Schmidtea mediterranea...    44   5.6    1
(DN212409) MEST940_D04.T7-1 UGA-ZmSAM-XZ2 Zea mays cDNA, mRN...    44   5.6    1
(CV322084) CM3-MT0112-310700-262-b01 MT0112 Homo sapiens cDN...    44   5.6    1
(CT945766) Phaeodactylum tricornutum 5-PRIME EST from clone ...    44   5.6    1
(CT617100) Danio rerio EST, clone ZF_mu_73p16 5'.                  44   5.6    1
(CT614885) Danio rerio EST, clone ZF_mu_73p15 5'.                  44   5.6    1
(AJ801755) Antirrhinum majus EST, clone 018_5_02_c07.              44   5.6    1
(AJ793687) Antirrhinum majus EST, clone 018_3_03_c03.              44   5.6    1
(CD382314) PTMM07484 Phaeodactylum tricornutum Uni-Zap XR Ph...    44   5.6    1
(EY066341) CATF9288.rev CATF Artemisia annua, Tanzanian, fro...    30   6.8    3
(CU929659) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    34   6.8    4
(EY053214) CATC4178.rev CATC Artemisia annua, Tanzanian, fro...    30   7.7    3
(AC096072) Rattus norvegicus clone CH230-12O8, WORKING DRAFT...    34   8.0    5
(EU142602) Pterostichus lanei voucher kww200 cytochrome oxid...    34   8.3    2
(BX537132) Zebrafish DNA sequence from clone RP71-8L21 in li...    36   8.9    3
(AC010834) Homo sapiens chromosome 8, clone RP11-10N23, comp...    36   9.0    5
(FH180264) CHO_OF3418xk21r1.ab1 CHO_OF3 Nicotiana tabacum ge...    40   9.4    2
(CT027627) Zebrafish DNA sequence from clone CH211-214F1 in ...    32   10.0   2

>(AU262582) Dictyostelium discoideum vegetative cDNA clone:VSC463,
           3' end single read.
          Length = 551

 Score =  862 bits (435), Expect = 0.0
 Identities = 435/435 (100%)
 Strand = Plus / Plus


Query: 1   ctttttcgtttcaagtgcccaaagagaatgtatgaattgtaagactaaaccagagttttc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ctttttcgtttcaagtgcccaaagagaatgtatgaattgtaagactaaaccagagttttc 60


Query: 61  tgcagttggcttactttgtaatcaattggtatgctctcataggagcgaatgttgtaatga 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  tgcagttggcttactttgtaatcaattggtatgctctcataggagcgaatgttgtaatga 120


Query: 121 tgatgataaacattataacatatccgaaggctataaacatactttgaaatgtggcagttt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 tgatgataaacattataacatatccgaaggctataaacatactttgaaatgtggcagttt 180


Query: 181 taaggttggtttctttttagaaactaaagctcctcgaatcgatatcctacgtgatcatag 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 taaggttggtttctttttagaaactaaagctcctcgaatcgatatcctacgtgatcatag 240


Query: 241 aaagagtatttttaataatggttacctcgatcaatatggtgaatccgatccaactttgga 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 aaagagtatttttaataatggttacctcgatcaatatggtgaatccgatccaactttgga 300


Query: 301 tcgtggtaaaccattattaagaaatgataataactttcaagatctttggaattgttggat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 tcgtggtaaaccattattaagaaatgataataactttcaagatctttggaattgttggat 360


Query: 361 tactcattcaattgaggatcgtttcctttcaaactcaacacttttttctagaacttttta 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tactcattcaattgaggatcgtttcctttcaaactcaacacttttttctagaacttttta 420


Query: 421 aatatataaatatat 435
           |||||||||||||||
Sbjct: 421 aatatataaatatat 435

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 555,259,833
Number of extensions: 35040278
Number of successful extensions: 3350802
Number of sequences better than 10.0: 78
Length of query: 551
Length of database: 101,790,757,118
Length adjustment: 23
Effective length of query: 528
Effective length of database: 99,442,330,388
Effective search space: 52505550444864
Effective search space used: 52505550444864
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7.29
Homology vs Protein 
Query= Contig-U03903-1 (Contig-U03903-1Q) /CSM_Contig/Contig-U03903-1Q.Seq.d
         (551 letters)

Database: nrp_A
           3,268,448 sequences; 1,061,185,681 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BC078396_1(BC078396|pid:none) Danio rerio ubiquitin protein liga...    69   6e-11
BC124477_1(BC124477|pid:none) Danio rerio ubiquitin protein liga...    69   6e-11
BT071908_1(BT071908|pid:none) Salmo salar clone ssal-rgf-503-163...    69   1e-10
CP001576_520(CP001576|pid:none) Micromonas sp. RCC299 chromosome...    68   2e-10
BC157930_1(BC157930|pid:none) Mus musculus ubiquitin protein lig...    66   5e-10
DQ924536_1(DQ924536|pid:none) Mus musculus ubiquitin ligase (Ubr...    66   5e-10
(Q5U430) RecName: Full=E3 ubiquitin-protein ligase UBR3;        ...    66   5e-10
AC092641_1(AC092641|pid:none) Homo sapiens BAC clone RP11-389F18...    65   9e-10
AK303062_1(AK303062|pid:none) Homo sapiens cDNA FLJ53501 complet...    65   9e-10
BC113010_1(BC113010|pid:none) Homo sapiens zinc finger protein 6...    65   9e-10
AK128490_1(AK128490|pid:none) Homo sapiens cDNA FLJ46640 fis, cl...    65   9e-10
CR861254_1(CR861254|pid:none) Pongo abelii mRNA; cDNA DKFZp459P0...    65   9e-10
(Q6ZT12) RecName: Full=E3 ubiquitin-protein ligase UBR3;        ...    65   9e-10
AX965629_1(AX965629|pid:none) Sequence 57 from Patent EP1375515....    60   4e-08
AB002347_1(AB002347|pid:none) Human mRNA for KIAA0349 gene, part...    60   4e-08
AK127310_1(AK127310|pid:none) Homo sapiens cDNA FLJ45378 fis, cl...    60   4e-08
AK304070_1(AK304070|pid:none) Homo sapiens cDNA FLJ55442 complet...    60   4e-08
AL049843_4(AL049843|pid:none) Human DNA sequence from clone RP3-...    60   4e-08
BC107934_1(BC107934|pid:none) Rattus norvegicus similar to ubiqu...    59   8e-08
BC026391_1(BC026391|pid:none) Mus musculus ubiquitin protein lig...    59   8e-08
BC025617_1(BC025617|pid:none) Mus musculus ubiquitin protein lig...    59   8e-08
BC031403_1(BC031403|pid:none) Mus musculus ubiquitin protein lig...    59   8e-08
AK147445_1(AK147445|pid:none) Mus musculus cDNA, RIKEN full-leng...    59   8e-08
AK122254_1(AK122254|pid:none) Mus musculus premature mRNA for mK...    59   8e-08
AY280958_1(AY280958|pid:none) Mus musculus ubiquitin ligase UBR2...    59   8e-08
BT034767_1(BT034767|pid:none) Zea mays full-length cDNA clone ZM...    58   1e-07
AM270222_48(AM270222|pid:none) Aspergillus niger contig An11c005...    57   4e-07
AE017345_368(AE017345|pid:none) Cryptococcus neoformans var. neo...    55   2e-06
BC100240_1(BC100240|pid:none) Xenopus laevis hypothetical protei...    54   2e-06
(O70481) RecName: Full=E3 ubiquitin-protein ligase UBR1;        ...    51   2e-05
(Q8IWV7) RecName: Full=E3 ubiquitin-protein ligase UBR1;        ...    51   2e-05
AL844548_1(AL844548|pid:none) Mouse DNA sequence from clone RP23...    51   2e-05
AY094815_1(AY094815|pid:none) Drosophila melanogaster LD31957 fu...    50   4e-05
AL162874_7(AL162874|pid:none) Arabidopsis thaliana DNA chromosom...    50   4e-05
(O60152) RecName: Full=E3 ubiquitin-protein ligase ubr1;        ...    50   4e-05
AM502227_79(AM502227|pid:none) Leishmania infantum chromosome 9.       49   1e-04
CT005248_87(CT005248|pid:none) Leishmania major strain Friedlin,...    49   1e-04
AM494946_82(AM494946|pid:none) Leishmania braziliensis chromosom...    47   3e-04
AF525401_1(AF525401|pid:none) Homo sapiens UBR1 E3a ligase mRNA,...    46   6e-04
(O13731) RecName: Full=E3 ubiquitin-protein ligase ubr11;       ...    44   0.004
AP008207_285(AP008207|pid:none) Oryza sativa (japonica cultivar-...    43   0.005
AE014188_321(AE014188|pid:none) Plasmodium falciparum 3D7 chromo...    43   0.005
FN357904_3(FN357904|pid:none) Schistosoma mansoni genome sequenc...    40   0.031
CR940353_474(CR940353|pid:none) Theileria annulata strain Ankara...    40   0.053
DQ157982_5(DQ157982|pid:none) Staphylococcus aureus strain D535 ...    36   0.76
AJ617713_2(AJ617713|pid:none) Staphylococcus aureus agrD gene an...    36   0.76
CU633438_249(CU633438|pid:none) Podospora anserina genomic DNA c...    36   0.76
CR382139_793(CR382139|pid:none) Debaryomyces hansenii strain CBS...    35   0.99
U40029_13(U40029|pid:none) Caenorhabditis elegans cosmid F10G7, ...    35   0.99
CU928166_144(CU928166|pid:none) Kluyveromyces thermotolerans str...    35   1.7
(Q8RP98) RecName: Full=3-isopropylmalate dehydratase small subun...    34   2.9
AM055942_190(AM055942|pid:none) Toxoplasma gondii RH, genomic DN...    33   3.8
FJ154839_3(FJ154839|pid:none) Staphylococcus aureus strain 03-17...    33   4.9
(B1ZI64) RecName: Full=3-isopropylmalate dehydratase small subun...    32   8.4
AC116977_33(AC116977|pid:none) Dictyostelium discoideum chromoso...    32   8.4
AY082429_1(AY082429|pid:none) Mus musculus PLU1 (Plu1) mRNA, com...    32   8.4
AK220451_1(AK220451|pid:none) Mus musculus mRNA for mKIAA4034 pr...    32   8.4

>BC078396_1(BC078396|pid:none) Danio rerio ubiquitin protein ligase
           E3 component n-recognin 3, mRNA (cDNA clone
           IMAGE:7040392), partial cds.
          Length = 443

 Score = 69.3 bits (168), Expect = 6e-11
 Identities = 39/119 (32%), Positives = 60/119 (50%)
 Frame = +2

Query: 20  QRECMNCKTKPEFSAVGLLCNQLVCSHRSECCNDDDKHYNISEGYKHTLKCGSFKVGFFL 199
           ++ C +C   P+  A+ L+C   VC  +  CC    K   + E   H+  CG+   G FL
Sbjct: 318 RKSCSSCGKTPKDPALCLVCGAFVCL-KGHCC----KQQGVCECVLHSQHCGA-ATGIFL 371

Query: 200 ETKAPRIDILRDHRKSIFNNGYLDQYGESDPTLDRGKPLLRNDNNFQDLWNCWITHSIE 376
              A  I I+R HR  ++ + YLD +GE D  L RGKPL   +  ++ L   W+ H+ +
Sbjct: 372 LINASVIIIIRGHRFCLWGSVYLDAHGEEDRDLRRGKPLYLCEERYRVLEQQWVAHTFD 430

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: 3268448
Number of Hits to DB: 763,012,763
Number of extensions: 14607795
Number of successful extensions: 33340
Number of sequences better than 10.0: 57
Number of HSP's gapped: 33300
Number of HSP's successfully gapped: 57
Length of query: 183
Length of database: 1,061,185,681
Length adjustment: 121
Effective length of query: 62
Effective length of database: 665,703,473
Effective search space: 41273615326
Effective search space used: 41273615326
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: 30 (16.2 bits)
PSORT 

 psg: 0.61  gvh: 0.57  alm: 0.49  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 

	 32.0 %: cytoplasmic
	 28.0 %: mitochondrial
	 24.0 %: nuclear
	 12.0 %: cytoskeletal
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U03903-1 is cyt
VS (DIR, S) 1
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 1
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