Contig-U00318-1
Contig ID Contig-U00318-1
Contig update 2001. 8.29
Contig sequence
>Contig-U00318-1 (Contig-U00318-1Q) /CSM_Contig/Contig-U00318-1Q.Seq.d
GAAAATAAATTAAAAAATGGAGAAAATTGATAACAATGAAAGTGGGGCTG
AAAAATCAGAACCAATGAAAGTTGATTTGAAAACAGAAACAAAAACAGAA
ACTGAAACAGAAACAAAAACTGAAACAGAAACAAAAACAGAAACTACTTC
CACAATAAAAACAGAAACACCAACACCAACACCAACAACAATACCAACGC
CAACACCAACACCAACAACTACCACACCAACAACAACTACTACAACAATA
CCAACACCAACATTTAAAATACCAGAAAATAATGAAGAATTAATTAAATT
TGCAACAGAACAAAGATTTGAGGAAGGCACAATTGATTATAGAAATTTAA
TATTTAGATTAGAATCAATGGAGAGTAGATTATTTAAAAATGCACATATT
CCAACGATTGTACAATTAAATTCAATTAAAGTTTGTCCAAGATGTATTTT
TAGATTCTTAAATATTAAAGAATTATCAATTTATCAAGAATCTTTAAATA
CATTATCACATTTAATTCAATTTTTAATGTTTAATCAAAAACAAAAAGAT
TTAAATGAAAATAAACAAAAACAACAACAACAACAACAAGGAGGAGGAGA
AGTTGAAAATTTAAAAAAATATGATCCAAATATGAATGAAAG--------
--GCTGNAAAGTATAATAAATTCGTCAGAGATTTAAGTCAGACACCATGG
GAGTATGACGACTCCTCAGTTCAGGATTTAATATGTAAAGATATTCAAGA
AACGTTTAAAGCAGATTCCATCCTATTCACCACATCCGGTAGGGAGGACA
TCGATGTTAGAATGCTTGGCGATGGCAGACCCTTTTATATTGAGATTGTG
AACCCTCACAGAATCTTCTTCAAGAATCAAGACTTTGAGAAACTAGAATC
CTCCATCAACGACTCCACAAAGAAGATCAAAGTCTCAAATTTACAATTAA
TCACAAAGAAAGAAACCACCATCATCAAAGACTCTGGTGGCACAAAACAA
AAAAATTATCGTTGTTTCATTTGGACAAGTAGAATTTTACAACCTTCAGA
TCTTGATACACTCAATAATTTAAAAGATATACAACTTCATCAAAACACTC
CCATTAGAGTATTACATCGTAGATCTCTAATGATTAGAAATAAAAAAATC
TCAAAATTACATGCAACATTTATCAGTCCTCATTTCTTTATGTTGGATAT
CATTGACGCTCAAGCTGGAACCTACATTAAAGAATTTGTTCATGGTGATT
TAGGTAGAACTTTACCAAACATTGGTTTATTATTAGGAAATTGTGAAGCT
GACATACTCAATTAGATGTACTAAATGTTGNTTTAANTTTCCCAGCTANA
GNAAATAAAA

Gap gap included
Contig length 1350
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 855839
End point 854486
Strand (PLUS/MINUS) MINUS
Number of clones 2
Number of EST 4
Link to clone list U00318
List of clone(s)

est1=AFF855F,1,643
est2=VFA370F,7,643
est3=VFA370Z,644,1283
est4=AFF855Z,759,1352
Translated Amino Acid sequence
kin*KMEKIDNNESGAEKSEPMKVDLKTETKTETETETKTETETKTETTSTIKTETPTPT
PTTIPTPTPTPTTTTPTTTTTTIPTPTFKIPENNEELIKFATEQRFEEGTIDYRNLIFRL
ESMESRLFKNAHIPTIVQLNSIKVCPRCIFRFLNIKELSIYQESLNTLSHLIQFLMFNQK
QKDLNENKQKQQQQQQGGGEVENLKKYDPNMNE---

---AXKYNKFVRDLSQTPWEYDDSSVQDLICKDIQETFKADSILFTTSGREDIDVRMLGD
GRPFYIEIVNPHRIFFKNQDFEKLESSINDSTKKIKVSNLQLITKKETTIIKDSGGTKQK
NYRCFIWTSRILQPSDLDTLNNLKDIQLHQNTPIRVLHRRSLMIRNKKISKLHATFISPH
FFMLDIIDAQAGTYIKEFVHGDLGRTLPNIGLLLGNCEADILN*my*mlx*xsqlxxik


Translated Amino Acid sequence (All Frames)
Frame A:
enklkngen**q*kwg*kirtnes*fenrnknrn*nrnkn*nrnknrnyfhnknrntntn
tnnntnantntnnyhtnnnyynntntni*ntrk**rin*icnrtki*grhn*l*kfni*i
ringe*ii*kctysndctikfn*slskmyf*ilky*riinlsrifkyiitfnsifnv*sk
tkrfk*k*tkttttttrrrrs*kfkki*skye*k---

---AXKYNKFVRDLSQTPWEYDDSSVQDLICKDIQETFKADSILFTTSGREDIDVRMLGD
GRPFYIEIVNPHRIFFKNQDFEKLESSINDSTKKIKVSNLQLITKKETTIIKDSGGTKQK
NYRCFIWTSRILQPSDLDTLNNLKDIQLHQNTPIRVLHRRSLMIRNKKISKLHATFISPH
FFMLDIIDAQAGTYIKEFVHGDLGRTLPNIGLLLGNCEADILN*my*mlx*xsqlxxik

Frame B:
kin*KMEKIDNNESGAEKSEPMKVDLKTETKTETETETKTETETKTETTSTIKTETPTPT
PTTIPTPTPTPTTTTPTTTTTTIPTPTFKIPENNEELIKFATEQRFEEGTIDYRNLIFRL
ESMESRLFKNAHIPTIVQLNSIKVCPRCIFRFLNIKELSIYQESLNTLSHLIQFLMFNQK
QKDLNENKQKQQQQQQGGGEVENLKKYDPNMNE---

---lxsiinssei*vrhhgsmttpqfri*yvkifkkrlkqipsysphpvgrtsmleclam
adpfilrl*tltesssriktlrn*nppsttpqrrsksqiyn*sqrkkppssktlvaqnkk
iivvsfgqvefynlqilihsii*kiynfiktlpleyyivdl**leikksqnymqhlsvli
slcwisltlkleptlknlfmvi*velyqtlvyy*eivkltysirctkcxfxfpsxxk*

Frame C:
k*ikkwrklitmkvglknqnq*kli*kqkqkqklkqkqklkqkqkqkllpq*kqkhqhqh
qqqyqrqhqhqqlphqqqllqqyqhqhlkyqkimkn*lnlqqnkdlrkaqliiei*yld*
nqwrvdylkmhifqrlyn*iqlkfvqdvflds*ilknyqfiknl*ihyhi*fnf*clikn
kki*mkinknnnnnnkeeeklki*knmiqi*mk---

---xkv**irqrfksdtmgv*rllssgfnm*rysrnv*srfhpihhir*gghrc*nawrw
qtlly*dcepsqnllqesrl*etrilhqrlhkedqslkftinhkernhhhqrlwwhktkk
lslfhldk*nfttfrs*ytq*fkryttsskhsh*sits*isnd*k*knlkitcniyqssf
lyvgyh*rsswnlh*ricsw*fr*nftkhwfiirkl*s*htqldvlnvxlxfpaxxnk

own update 2004. 6.21
Homology vs CSM-cDNA
Query= Contig-U00318-1 (Contig-U00318-1Q)
/CSM_Contig/Contig-U00318-1Q.Seq.d
(1360 letters)

Database: CSM
8402 sequences; 8,075,542 total letters


Score E
Sequences producing significant alignments: (bits) Value

Contig-U00318-1 (Contig-U00318-1Q) /CSM_Contig/Conti... 1314 0.0
Contig-U16366-1 (Contig-U16366-1Q) /CSM_Contig/Conti... 36 0.14
Contig-U15546-1 (Contig-U15546-1Q) /CSM_Contig/Conti... 36 0.14
Contig-U12246-1 (Contig-U12246-1Q) /CSM_Contig/Conti... 36 0.14
Contig-U06305-1 (Contig-U06305-1Q) /CSM_Contig/Conti... 36 0.14
Contig-U05507-1 (Contig-U05507-1Q) /CSM_Contig/Conti... 36 0.14
Contig-U16437-1 (Contig-U16437-1Q) /CSM_Contig/Conti... 34 0.54
Contig-U16245-1 (Contig-U16245-1Q) /CSM_Contig/Conti... 34 0.54
Contig-U16126-1 (Contig-U16126-1Q) /CSM_Contig/Conti... 34 0.54
Contig-U15858-1 (Contig-U15858-1Q) /CSM_Contig/Conti... 34 0.54

>Contig-U00318-1 (Contig-U00318-1Q) /CSM_Contig/Contig-U00318-1Q.Seq.d
Length = 1360

Score = 1314 bits (663), Expect = 0.0
Identities = 750/771 (97%)
Strand = Plus / Plus


Query: 590 ggaggaggagaagttgaaaatttnnnnnnntatgatccaaatatgaatgaaagnnnnnnn 649
||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 590 ggaggaggagaagttgaaaatttaaaaaaatatgatccaaatatgaatgaaagnnnnnnn 649


Query: 650 nnngctgnaaagtataataaattcgtcagagatttaagtcagacaccatgggagtatgac 709
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 650 nnngctgnaaagtataataaattcgtcagagatttaagtcagacaccatgggagtatgac 709


Query: 710 gactcctcagttcaggatttaatatgtaaagatattcaagaaacgtttaaagcagattcc 769
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 710 gactcctcagttcaggatttaatatgtaaagatattcaagaaacgtttaaagcagattcc 769


Query: 770 atcctattcaccacatccggtagggaggacatcgatgttagaatgcttggcgatggcaga 829
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 770 atcctattcaccacatccggtagggaggacatcgatgttagaatgcttggcgatggcaga 829


Query: 830 cccttttatattgagattgtgaaccctcacagaatcttcttcaagaatcaagactttgag 889
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 830 cccttttatattgagattgtgaaccctcacagaatcttcttcaagaatcaagactttgag 889


Query: 890 aaactagaatcctccatcaacgactccacaaagaagatcaaagtctcaaatttacaatta 949
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 890 aaactagaatcctccatcaacgactccacaaagaagatcaaagtctcaaatttacaatta 949


Query: 950 atcacaaagaaagaaaccaccatcatcaaagactctggtggcacaaaacnnnnnnnttat 1009
||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 950 atcacaaagaaagaaaccaccatcatcaaagactctggtggcacaaaacaaaaaaattat 1009


Query: 1010 cgttgtttcatttggacaagtagaattttacaaccttcagatcttgatacactcaataat 1069
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1010 cgttgtttcatttggacaagtagaattttacaaccttcagatcttgatacactcaataat 1069


Query: 1070 ttaaaagatatacaacttcatcaaaacactcccattagagtattacatcgtagatctcta 1129
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1070 ttaaaagatatacaacttcatcaaaacactcccattagagtattacatcgtagatctcta 1129


Query: 1130 atgattagaaatnnnnnnntctcaaaattacatgcaacatttatcagtcctcatttcttt 1189
|||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 1130 atgattagaaataaaaaaatctcaaaattacatgcaacatttatcagtcctcatttcttt 1189


Query: 1190 atgttggatatcattgacgctcaagctggaacctacattaaagaatttgttcatggtgat 1249
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1190 atgttggatatcattgacgctcaagctggaacctacattaaagaatttgttcatggtgat 1249


Query: 1250 ttaggtagaactttaccaaacattggtttattattaggaaattgtgaagctgacatactc 1309
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1250 ttaggtagaactttaccaaacattggtttattattaggaaattgtgaagctgacatactc 1309


Query: 1310 aattagatgtactaaatgttgntttaantttcccagctanagnaaataaaa 1360
|||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1310 aattagatgtactaaatgttgntttaantttcccagctanagnaaataaaa 1360


Score = 551 bits (278), Expect = e-156
Identities = 278/278 (100%)
Strand = Plus / Plus


Query: 257 ccaacatttaaaataccagaaaataatgaagaattaattaaatttgcaacagaacaaaga 316
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 257 ccaacatttaaaataccagaaaataatgaagaattaattaaatttgcaacagaacaaaga 316


Query: 317 tttgaggaaggcacaattgattatagaaatttaatatttagattagaatcaatggagagt 376
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 317 tttgaggaaggcacaattgattatagaaatttaatatttagattagaatcaatggagagt 376


Query: 377 agattatttaaaaatgcacatattccaacgattgtacaattaaattcaattaaagtttgt 436
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 377 agattatttaaaaatgcacatattccaacgattgtacaattaaattcaattaaagtttgt 436


Query: 437 ccaagatgtatttttagattcttaaatattaaagaattatcaatttatcaagaatcttta 496
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 437 ccaagatgtatttttagattcttaaatattaaagaattatcaatttatcaagaatcttta 496


Query: 497 aatacattatcacatttaattcaatttttaatgtttaa 534
||||||||||||||||||||||||||||||||||||||
Sbjct: 497 aatacattatcacatttaattcaatttttaatgtttaa 534


Score = 153 bits (77), Expect = 9e-37
Identities = 77/77 (100%)
Strand = Plus / Plus


Query: 1 gaaaataaattaaaaaatggagaaaattgataacaatgaaagtggggctgaaaaatcaga 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 gaaaataaattaaaaaatggagaaaattgataacaatgaaagtggggctgaaaaatcaga 60


Query: 61 accaatgaaagttgatt 77
|||||||||||||||||
Sbjct: 61 accaatgaaagttgatt 77


>Contig-U16366-1 (Contig-U16366-1Q) /CSM_Contig/Contig-U16366-1Q.Seq.d
Length = 2619

Score = 36.2 bits (18), Expect = 0.14
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 276 aaaataatgaagaattaa 293
||||||||||||||||||
Sbjct: 2280 aaaataatgaagaattaa 2297


>Contig-U15546-1 (Contig-U15546-1Q) /CSM_Contig/Contig-U15546-1Q.Seq.d
Length = 2194

Score = 36.2 bits (18), Expect = 0.14
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 1062 tcaataatttaaaagata 1079
||||||||||||||||||
Sbjct: 1223 tcaataatttaaaagata 1240


Score = 36.2 bits (18), Expect = 0.14
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 1062 tcaataatttaaaagata 1079
||||||||||||||||||
Sbjct: 723 tcaataatttaaaagata 740


Database: CSM
Posted date: Jun 21, 2004 12:56 PM
Number of letters in database: 8,075,542
Number of sequences in database: 8402

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: 24,992
Number of Sequences: 8402
Number of extensions: 24992
Number of successful extensions: 2970
Number of sequences better than 10.0: 381
length of query: 1360
length of database: 8,075,542
effective HSP length: 16
effective length of query: 1344
effective length of database: 7,941,110
effective search space: 10672851840
effective search space used: 10672851840
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 2009. 4.15
Homology vs DNA
Query= Contig-U00318-1 (Contig-U00318-1Q) /CSM_Contig/Contig-U00318-1Q.Seq.d
(1360 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

(BJ428904) Dictyostelium discoideum cDNA clone:ddv1l17, 3' e... 678 0.0 3
(BJ340343) Dictyostelium discoideum cDNA clone:dda12n14, 3' ... 444 0.0 3
(BJ410736) Dictyostelium discoideum cDNA clone:ddv1l17, 5' e... 541 e-160 3
(BJ323876) Dictyostelium discoideum cDNA clone:dda12n14, 5' ... 541 e-160 3
(FF489228) G708P5173RB7.T0 Acorn worm normalized gastrula pE... 62 5e-06 2
(AK017063) Mus musculus adult male testis cDNA, RIKEN full-l... 62 6e-05 2
(BC025555) Mus musculus pseudouridylate synthase 10, mRNA (c... 62 6e-05 1
(AK145055) Mus musculus mammary gland RCB-0526 Jyg-MC(A) cDN... 62 6e-05 1
(AK088562) Mus musculus 2 days neonate thymus thymic cells c... 62 6e-05 1
(AK029866) Mus musculus adult male testis cDNA, RIKEN full-l... 62 6e-05 1
(DT931618) S29-20027 Hematopoietic stem cells Mus musculus c... 62 6e-05 1
(CF913455) A0648G03-5 NIA Mouse Hematopoietic Stem Cell (Lin... 62 6e-05 1
(CD773011) AGENCOURT_14719375 NIH_MGC_190 Mus musculus cDNA ... 62 6e-05 1
(AI592509) ms91e05.y1 Soares mouse 3NbMS Mus musculus cDNA c... 62 6e-05 1
(BG297100) 602395081F1 NIH_MGC_94 Mus musculus cDNA clone IM... 62 6e-05 1
(BG079228) H3037D03-5 NIA Mouse 15K cDNA Clone Set Mus muscu... 62 6e-05 1
(BF141761) 601787627F1 NCI_CGAP_Lu30 Mus musculus cDNA clone... 62 6e-05 1
(AA175471) ms91e05.r1 Soares mouse 3NbMS Mus musculus cDNA c... 62 6e-05 1
(EH012583) USDA-FP_185469 Lysiphlebus testaceipes adult whol... 50 3e-04 2
(EH180952) LB01754.CR_N22 GC_BGC-17 Bos taurus cDNA clone IM... 58 0.001 1
(DY507738) sh3P0007E05_F.ab1 adult sheep fracture callus 10d... 58 0.001 1
(DW142234) CLSZ1458.b1_D06.ab1 CLS(XYZ) lettuce sativa Lactu... 58 0.001 1
(CK962792) 4077272 BARC 9BOV Bos taurus cDNA clone 9BOV11_M0... 58 0.001 1
(GH536192) CCUH3540.g1 CCUH Peromyscus maniculatus bairdii B... 58 0.001 1
(AM661143) Entamoeba moshkovskii FIC GSS, clone mosh106c11.p1k. 44 0.005 2
(AK028368) Mus musculus 18 days pregnant adult female placen... 54 0.015 1
(AZ680519) ENTJH19TF Entamoeba histolytica Sheared DNA Entam... 46 0.023 2
(BH134433) ENTNP83TF Entamoeba histolytica Sheared DNA Entam... 46 0.023 2
(BH139128) ENTOA69TR Entamoeba histolytica Sheared DNA Entam... 46 0.023 2
(BH132051) ENTNS68TF Entamoeba histolytica Sheared DNA Entam... 46 0.024 2
(BC143480) Homo sapiens cDNA clone IMAGE:9051988. 42 0.040 2
(BC101706) Homo sapiens pseudouridylate synthase 10, mRNA (c... 42 0.042 2
(BC101680) Homo sapiens pseudouridylate synthase 10, mRNA (c... 42 0.042 2
(AK291729) Homo sapiens cDNA FLJ77651 complete cds. 42 0.044 2
(BD286720) Novel full length cDNA. 42 0.050 2
(AX714497) Sequence 1181 from Patent EP1293569. 42 0.050 2
(AR787349) Sequence 1181 from patent US 6979557. 42 0.050 2
(AK056874) Homo sapiens cDNA FLJ32312 fis, clone PROST2003210. 42 0.050 2
(BC072319) Xenopus laevis MGC83083 protein, mRNA (cDNA clone... 52 0.058 1
(GO216047) CAGB26125.fwd CAGB Alvinella pompejana Normalized... 52 0.058 1
(GO216046) CAGB26125.rev CAGB Alvinella pompejana Normalized... 52 0.058 1
(AL832208) Homo sapiens mRNA; cDNA DKFZp686K122 (from clone ... 42 0.14 2
(EK338104) 1095467050059 Global-Ocean-Sampling_GS-31-01-01-1... 50 0.23 1
(EJ531160) 1092955229051 Global-Ocean-Sampling_GS-29-01-01-1... 50 0.23 1
(ES400816) MUT13-B20.y1d-s SHGC-MUT Mytilus californianus cD... 50 0.23 1
(EH015877) USDA-FP_188434 Lysiphlebus testaceipes adult whol... 50 0.23 1
(CO990733) UMC-pd3ov3-007-a02 Oviduct gilt D3 of estrous cyc... 50 0.23 1
(CJ404789) Molgula tectiformis cDNA, gonad clone:mtgd021h22,... 50 0.23 1
(C77560) Mus musculus 3.5-dpc blastocyst cDNA 3'-end sequenc... 50 0.23 1
(BI403774) MI-P-CP1-nwq-e-10-0-UI.s1 MI-P-CP1 Sus scrofa cDN... 50 0.23 1
(EW539351) rret12_o17.y1 ret Sus scrofa cDNA 5', mRNA sequence. 50 0.23 1
(EI940593) VUH2-71D13TV VUUBBa (VUH2) Vigna unguiculata geno... 42 0.75 3
(BC108709) Homo sapiens cDNA clone IMAGE:6161308. 48 0.90 1
(AL513502) Homo sapiens chromosome 9 BAC RP11-123j20. 48 0.90 1
(AL450004) Homo sapiens chromosome 9 BAC RP11-520K3. 48 0.90 1
(AC069025) Homo sapiens chromosome 10 clone RP11-526G5, comp... 48 0.90 1
(AL161933) Human DNA sequence *** SEQUENCING CANCELLED *** f... 48 0.90 1
(ER416593) 1092963673906 Global-Ocean-Sampling_GS-35-01-01-1... 48 0.90 1
(EJ410346) 1093012134487 Global-Ocean-Sampling_GS-28-01-01-1... 48 0.90 1
(DU838988) MUGQ_CH252P015K18T7_GL294_069 CHORI-252 Vervet Mo... 48 0.90 1
(CV517459) 0089P0002Z_H11_SP6 Mimulus guttatus library 2 Mim... 48 0.90 1
(CV517394) 0089P0002Z_H11_T7 Mimulus guttatus library 2 Mimu... 48 0.90 1
(CT863034) Oryza sativa Indica Group EST sequence:OSIGCRA212... 48 0.90 1
(EW966883) LS_11_C22_T7 Headlice composite library with all ... 48 0.90 1
(DU879196) 282945 Tomato HindIII BAC Library Solanum lycoper... 40 1.00 3
(AC136592) Homo sapiens chromosome 5 clone RP11-1021G2, WORK... 40 3.1 2
(BV457623) qfj67b05.b1 Clint Pan troglodytes verus STS genom... 46 3.6 1
(AC190171) Pan troglodytes BAC clone CH251-522D1 from chromo... 46 3.6 1
(AC151913) Pan troglodytes chromosome X clone RP43-057B02 ma... 46 3.6 1
(AC151912) Pan troglodytes chromosome X clone PTB-093M21 map... 46 3.6 1
(AL034401) Human DNA sequence from clone RP1-212J10 on chrom... 46 3.6 1
(AC162207) Bos taurus clone CH240-114N15, WORKING DRAFT SEQU... 46 3.6 1
(AC126313) Rattus norvegicus clone CH230-426G4, WORKING DRAF... 46 3.6 1
(AC120228) Rattus norvegicus clone CH230-113L21, WORKING DRA... 46 3.6 1
(AC106065) Rattus norvegicus clone CH230-18J12, WORKING DRAF... 46 3.6 1
(AC025859) Homo sapiens chromosome X clone RP11-614F19 map X... 46 3.6 1
(CT961044) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 46 3.6 1
(AP010607) Lotus japonicus genomic DNA, chromosome 3, clone:... 46 3.6 1
(AC224832) Bos taurus clone CH240-474O22, WORKING DRAFT SEQU... 46 3.6 1
(AC165705) Bos taurus clone CH240-166D9, WORKING DRAFT SEQUE... 46 3.6 1
(AQ842172) T134466 Soybean RFLP probe Glycine max genomic cl... 46 3.6 1
(AQ841467) T136840b shotgun sub-library of BAC clone 14E22 M... 46 3.6 1
(AQ841465) T136835b shotgun sub-library of BAC clone 14E22 M... 46 3.6 1
(AQ841451) T136801b shotgun sub-library of BAC clone 14E22 M... 46 3.6 1
(AQ131718) HS_3041_B2_G07_MF CIT Approved Human Genomic Sper... 46 3.6 1
(AG093362) Pan troglodytes DNA, clone: PTB-093M21.R. 46 3.6 1
(AU022571) Mus musculus unfertilized egg cDNA 3'-end sequenc... 46 3.6 1
(AU022024) Mus musculus unfertilized egg cDNA 3'-end sequenc... 46 3.6 1
(AU022023) Mus musculus unfertilized egg cDNA 3'-end sequenc... 46 3.6 1
(AU022021) Mus musculus unfertilized egg cDNA 3'-end sequenc... 46 3.6 1
(AU022020) Mus musculus unfertilized egg cDNA 3'-end sequenc... 46 3.6 1
(CV856846) gonad_EST04322 Embryonic gonad cDNA Library Gallu... 46 3.6 1
(CV855049) gonad_EST02525 Embryonic gonad cDNA Library Gallu... 46 3.6 1
(BU347950) 604170248F1 CSEQCHN68 Gallus gallus cDNA clone Ch... 46 3.6 1
(FE358410) CBNN17341.rev CBNN_Daphnia_pulex_Chosen_One_Libra... 46 3.6 1
(FC698281) CAXX6968.rev CAXX Lottia gigantea from male gonad... 46 3.6 1
(CP000806) Cyanothece sp. ATCC 51142 circular chromosome, co... 46 3.6 1
(EJ302680) 1095390046647 Global-Ocean-Sampling_GS-27-01-01-1... 44 4.2 2
(ER504614) 1093015416494 Global-Ocean-Sampling_GS-35-01-01-1... 40 4.3 2
(CU469464) Candidatus Phytoplasma mali strain AT complete ch... 34 6.1 2
(AC106916) Rattus norvegicus clone CH230-59I17, *** SEQUENCI... 34 6.3 2
(AL355513) Human DNA sequence *** SEQUENCING CANCELLED *** f... 36 6.4 5
(AC127121) Rattus norvegicus clone CH230-99O3, *** SEQUENCIN... 34 6.4 2
(CU463895) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 34 6.5 2
(AY691414) Vryburgia amaryllidis cytochrome b (cytb) gene, p... 36 8.0 3
(AL360002) Human DNA sequence from clone RP11-192B4 on chrom... 42 8.7 3

>(BJ428904) Dictyostelium discoideum cDNA clone:ddv1l17, 3' end,
single read.
Length = 640

Score = 678 bits (342), Expect(3) = 0.0
Identities = 345/345 (100%)
Strand = Plus / Minus


Query: 654 ctgnaaagtataataaattcgtcagagatttaagtcagacaccatgggagtatgacgact 713
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 639 ctgnaaagtataataaattcgtcagagatttaagtcagacaccatgggagtatgacgact 580


Query: 714 cctcagttcaggatttaatatgtaaagatattcaagaaacgtttaaagcagattccatcc 773
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 579 cctcagttcaggatttaatatgtaaagatattcaagaaacgtttaaagcagattccatcc 520


Query: 774 tattcaccacatccggtagggaggacatcgatgttagaatgcttggcgatggcagaccct 833
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 519 tattcaccacatccggtagggaggacatcgatgttagaatgcttggcgatggcagaccct 460


Query: 834 tttatattgagattgtgaaccctcacagaatcttcttcaagaatcaagactttgagaaac 893
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 459 tttatattgagattgtgaaccctcacagaatcttcttcaagaatcaagactttgagaaac 400


Query: 894 tagaatcctccatcaacgactccacaaagaagatcaaagtctcaaatttacaattaatca 953
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 399 tagaatcctccatcaacgactccacaaagaagatcaaagtctcaaatttacaattaatca 340


Query: 954 caaagaaagaaaccaccatcatcaaagactctggtggcacaaaac 998
|||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 339 caaagaaagaaaccaccatcatcaaagactctggtggcacaaaac 295

Score = 280 bits (141), Expect(3) = 0.0
Identities = 143/144 (99%)
Strand = Plus / Minus


Query: 1149 tctcaaaattacatgcaacatttatcagtcctcatttctttatgttggatatcattgacg 1208
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 144 tctcaaaattacatgcaacatttatcagtcctcatttctttatgttggatatcattgacg 85


Query: 1209 ctcaagctggaacctacattaaagaatttgttcatggtgatttaggtagaactttaccaa 1268
|||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 84 ctcaagctggaacctacattaaagaatttgttcatggtnatttaggtagaactttaccaa 25


Query: 1269 acattggtttattattaggaaatt 1292
||||||||||||||||||||||||
Sbjct: 24 acattggtttattattaggaaatt 1

Score = 270 bits (136), Expect(3) = 0.0
Identities = 136/136 (100%)
Strand = Plus / Minus


Query: 1006 ttatcgttgtttcatttggacaagtagaattttacaaccttcagatcttgatacactcaa 1065
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 287 ttatcgttgtttcatttggacaagtagaattttacaaccttcagatcttgatacactcaa 228


Query: 1066 taatttaaaagatatacaacttcatcaaaacactcccattagagtattacatcgtagatc 1125
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 227 taatttaaaagatatacaacttcatcaaaacactcccattagagtattacatcgtagatc 168


Query: 1126 tctaatgattagaaat 1141
||||||||||||||||
Sbjct: 167 tctaatgattagaaat 152

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 1,330,295,936
Number of extensions: 85857219
Number of successful extensions: 6779657
Number of sequences better than 10.0: 107
Length of query: 1360
Length of database: 101,790,757,118
Length adjustment: 24
Effective length of query: 1336
Effective length of database: 99,340,224,878
Effective search space: 132718540437008
Effective search space used: 132718540437008
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7.10
Homology vs Protein
Query= Contig-U00318-1 (Contig-U00318-1Q) /CSM_Contig/Contig-U00318-1Q.Seq.d
(1360 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

AK291729_1(AK291729|pid:none) Homo sapiens cDNA FLJ77651 complet... 218 5e-55
(Q3MIT2) RecName: Full=Putative tRNA pseudouridine synthase Pus1... 218 5e-55
AK056874_1(AK056874|pid:none) Homo sapiens cDNA FLJ32312 fis, cl... 218 5e-55
AK145055_1(AK145055|pid:none) Mus musculus mammary gland RCB-052... 214 4e-54
(Q9D3U0) RecName: Full=Putative tRNA pseudouridine synthase Pus1... 213 1e-53
AK029866_1(AK029866|pid:none) Mus musculus adult male testis cDN... 212 2e-53
AK028368_1(AK028368|pid:none) Mus musculus 18 days pregnant adul... 211 5e-53
BC153932_1(BC153932|pid:none) Danio rerio zgc:171472, mRNA (cDNA... 209 2e-52
(Q6ING2) RecName: Full=Putative tRNA pseudouridine synthase Pus1... 189 2e-46
AP008210_1567(AP008210|pid:none) Oryza sativa (japonica cultivar... 171 7e-41
CR855177_2(CR855177|pid:none) Oryza sativa (indica cultivar-grou... 170 1e-40
AK119062_1(AK119062|pid:none) Arabidopsis thaliana At1g20410 mRN... 160 8e-38
AM502229_54(AM502229|pid:none) Leishmania infantum chromosome 11. 152 4e-35
CT005250_53(CT005250|pid:none) Leishmania major strain Friedlin,... 151 6e-35
AC027665_23(AC027665|pid:none) Genomic sequence for Arabidopsis ... 147 7e-34
(Q9VPK7) RecName: Full=Putative tRNA pseudouridine synthase Pus1... 132 2e-29
CP001327_361(CP001327|pid:none) Micromonas sp. RCC299 chromosome... 130 8e-29
AL117203_12(AL117203|pid:none) Caenorhabditis elegans YAC Y48C3A... 124 1e-26
AJ248285_211(AJ248285|pid:none) Pyrococcus abyssi complete genom... 122 4e-26
CP000505_353(CP000505|pid:none) Thermofilum pendens Hrk 5, compl... 121 5e-26
BA000001_994(BA000001|pid:none) Pyrococcus horikoshii OT3 DNA, c... 119 2e-25
CP001398_910(CP001398|pid:none) Thermococcus gammatolerans EJ3, ... 119 3e-25
CR936257_1189(CR936257|pid:none) Natronomonas pharaonis DSM 2160... 117 7e-25
BX538352_39(BX538352|pid:none) Cryptosporidium parvum chromosome... 117 7e-25
AE009950_1139(AE009950|pid:none) Pyrococcus furiosus DSM 3638, c... 117 1e-24
CP000600_123(CP000600|pid:none) Ostreococcus lucimarinus CCE9901... 115 3e-24
(Q60346) RecName: Full=Uncharacterized protein MJ0041; &A64305(... 115 4e-24
CP000855_407(CP000855|pid:none) Thermococcus onnurineus NA1, com... 115 5e-24
AP006878_904(AP006878|pid:none) Thermococcus kodakarensis KOD1 D... 114 1e-23
CP000609_1562(CP000609|pid:none) Methanococcus maripaludis C5, c... 112 2e-23
EU016596_13(EU016596|pid:none) Uncultured marine microorganism H... 112 2e-23
EU016609_22(EU016609|pid:none) Uncultured marine microorganism H... 112 2e-23
AY714864_12(AY714864|pid:none) Uncultured archaeon GZfos35B7 clo... 112 3e-23
CP000780_1866(CP000780|pid:none) Candidatus Methanoregula boonei... 111 5e-23
CP001140_1406(CP001140|pid:none) Desulfurococcus kamchatkensis 1... 111 7e-23
T31596(T31596)hypothetical protein Y48C3A.n - Caenorhabditis ele... 111 7e-23
BA000011_313(BA000011|pid:none) Thermoplasma volcanium GSS1 DNA,... 110 2e-22
CP001338_523(CP001338|pid:none) Candidatus Methanosphaerula palu... 107 8e-22
CP000867_844(CP000867|pid:none) Methanococcus maripaludis C6, co... 106 2e-21
DQ445481_2(DQ445481|pid:none) Nosema bombycis contig 1, partial ... 106 2e-21
CP000099_3118(CP000099|pid:none) Methanosarcina barkeri str. Fus... 105 5e-21
FN357393_46(FN357393|pid:none) Schistosoma mansoni genome sequen... 104 6e-21
CP000743_1237(CP000743|pid:none) Methanococcus aeolicus Nankai-3... 104 8e-21
AM114193_809(AM114193|pid:none) Uncultured methanogenic archaeon... 103 1e-20
CP000562_1953(CP000562|pid:none) Methanoculleus marisnigri JR1, ... 103 1e-20
AE008384_2535(AE008384|pid:none) Methanosarcina mazei strain Goe... 102 4e-20
CP000254_2931(CP000254|pid:none) Methanospirillum hungatei JF-1,... 100 9e-20
AE010299_1407(AE010299|pid:none) Methanosarcina acetivorans str.... 99 4e-19
BA000002_403(BA000002|pid:none) Aeropyrum pernix K1 DNA, complet... 98 6e-19
AM180088_2159(AM180088|pid:none) Haloquadratum walsbyi DSM 16790... 97 1e-18
AY596297_2834(AY596297|pid:none) Haloarcula marismortui ATCC 430... 97 1e-18
CP000559_1553(CP000559|pid:none) Methanocorpusculum labreanum Z,... 96 2e-18
CP000477_974(CP000477|pid:none) Methanosaeta thermophila PT, com... 94 1e-17
CP001014_1483(CP001014|pid:none) Thermoproteus neutrophilus V24S... 90 2e-16
CP001365_1909(CP001365|pid:none) Halorubrum lacusprofundi ATCC 4... 89 3e-16
CP000504_593(CP000504|pid:none) Pyrobaculum islandicum DSM 4184,... 86 2e-15
CP001160_457(CP001160|pid:none) Thalassiosira pseudonana CCMP133... 86 3e-15
AE004437_1512(AE004437|pid:none) Halobacterium sp. NRC-1, comple... 85 5e-15
AM910995_451(AM910995|pid:none) Plasmodium knowlesi strain H chr... 83 3e-14
CP000493_1594(CP000493|pid:none) Hyperthermus butylicus DSM 5456... 83 3e-14
AE009441_2378(AE009441|pid:none) Pyrobaculum aerophilum str. IM2... 81 8e-14
AE014187_20(AE014187|pid:none) Plasmodium falciparum 3D7 chromos... 80 2e-13
AF275908_4(AF275908|pid:none) Babesia bovis strain Mo7 merozoite... 52 4e-05
CP000866_528(CP000866|pid:none) Nitrosopumilus maritimus SCM1, c... 50 1e-04
CR940347_684(CR940347|pid:none) Theileria annulata strain Ankara... 47 0.002
AB245538_1(AB245538|pid:none) Hyperthermus butylicus gene for Cb... 36 3.7
CP000493_1278(CP000493|pid:none) Hyperthermus butylicus DSM 5456... 36 3.7
BC158424_1(BC158424|pid:none) Xenopus tropicalis cDNA clone IMAG... 35 4.8
CP000560_1814(CP000560|pid:none) Bacillus amyloliquefaciens FZB4... 35 6.3

>AK291729_1(AK291729|pid:none) Homo sapiens cDNA FLJ77651 complete
cds.
Length = 529

Score = 218 bits (554), Expect = 5e-55
Identities = 109/224 (48%), Positives = 155/224 (69%), Gaps = 5/224 (2%)
Frame = +2

Query: 653 AXKYNKFVRDLSQTPWEYD-----DSSVQDLICKDIQETFKADSILFTTSGREDIDVRML 817
A +YNK+ R+L QTPW D +SSV++LI + FKA+S F++SGRED+DVR L
Sbjct: 291 AGRYNKYSRNLPQTPWIIDGERKLESSVEELISDHLLAVFKAESFNFSSSGREDVDVRTL 350

Query: 818 GDGRPFYIEIVNPHRIFFKNQDFEKLESSINDSTKKIKVSNLQLITKKETTIIKDSGGTK 997
G+GRPF IE+VNPHR+ F +Q+ ++L+ IN+S+ KI+V +LQL+T++ +K+ K
Sbjct: 351 GNGRPFAIELVNPHRVHFTSQEIKELQQKINNSSNKIQVRDLQLVTREAIGHMKEGEEEK 410

Query: 998 QKNYRCFIWTSRILQPSDLDTLNNLKDIQLHQNTPIRVLHRRSLMIRNKKISKLHATFIS 1177
K Y IWT++ +Q D++ LN++KD+++ Q TP+RVLHRR L +R + I + ++
Sbjct: 411 TKTYSALIWTNKAIQKKDIEFLNDIKDLKIDQKTPLRVLHRRPLAVRARVIHFMETQYVD 470

Query: 1178 PHFFMLDIIDAQAGTYIKEFVHGDLGRTLPNIGLLLGNCEADIL 1309
H F L + QAGTYIKEFVHGD GRT PNIG L+ N ADIL
Sbjct: 471 EHHFRLH-LKTQAGTYIKEFVHGDFGRTKPNIGSLM-NVTADIL 512

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: 1,598,664,027
Number of extensions: 27758219
Number of successful extensions: 63701
Number of sequences better than 10.0: 69
Number of HSP's gapped: 63507
Number of HSP's successfully gapped: 75
Length of query: 453
Length of database: 1,051,180,864
Length adjustment: 132
Effective length of query: 321
Effective length of database: 623,955,076
Effective search space: 200289579396
Effective search space used: 200289579396
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: 0.16 alm: 0.45 top: 0.53 tms: 0.00 mit: 0.15 mip: 0.00
nuc: 0.00 erl: 0.00 erm: 0.00 pox: 0.00 px2: 0.50 vac: 0.33 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

52.0 %: nuclear
32.0 %: cytoplasmic
4.0 %: cytoskeletal
4.0 %: mitochondrial
4.0 %: plasma membrane
4.0 %: endoplasmic reticulum

>> prediction for Contig-U00318-1 is nuc

VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 1
AH (FL, L) 0
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