Contig-U13126-1
Contig ID Contig-U13126-1
Contig update 2002.12.18
Contig sequence
>Contig-U13126-1 (Contig-U13126-1Q) /CSM_Contig/Contig-U13126-1Q.Seq.d
ACAATATATTTCATTTATTAAAAACAAATAACTAAAAATGGCAATTATTA
AACCAGGAGGTCACTACATTGTTCCAACAAAAGGTGAAGAAATTTCAACA
TTTATTCTTGAAAATGAAGGAGATGAATTAGCAAGATGTGAATTAAATCT
TAATGGCAACATTCAAGAAACACTTGATATTTTACCTCACAGCACTCAAA
CCAAAATGATGGATGTTAGAGGAAAATTAACCTTGTGCAATATAGGTAAA
ACCCATATTAAAATCCTTTAAATTTTTCATACTAAATTAACCTTTATTTG
TAGAAAGAAAATTAAATCTTCAAAACATTTTTAAATAAATTGGTTAATTT
CAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATT
TTTTTTTAAAAAAAAAA

Gap no gap
Contig length 417
Chromosome number (1..6, M) 5
Chromosome length 5062330
Start point 3568177
End point 3567821
Strand (PLUS/MINUS) MINUS
Number of clones 3
Number of EST 4
Link to clone list U13126
List of clone(s)

est1=CHQ472F,1,365
est2=CHC279F,3,365
est3=CHC279Z,3,342
est4=CHP860F,306,417
Translated Amino Acid sequence
qyisfiknk*LKMAIIKPGGHYIVPTKGEEISTFILENEGDELARCELNLNGNIQETLDI
LPHSTQTKMMDVRGKLTLCNIGKTHIKIL*ifhtkltficrkkiksskhf*inwlisnkk
kkkkkkkkkkkkiff*kk


Translated Amino Acid sequence (All Frames)
Frame A:
tiyfiy*kqitkngny*trrslhcsnkr*rnfniys*k*rr*iskm*iks*wqhsrnt*y
ftsqhsnqndgc*rkinlvqyr*npy*nplnfsy*inlyl*ken*ifktflnklvnfkqk
kkkkkkkkkkkknfflkkk


Frame B:
qyisfiknk*LKMAIIKPGGHYIVPTKGEEISTFILENEGDELARCELNLNGNIQETLDI
LPHSTQTKMMDVRGKLTLCNIGKTHIKIL*ifhtkltficrkkiksskhf*inwlisnkk
kkkkkkkkkkkkiff*kk


Frame C:
nifhllktnn*kwqllnqevttlfqqkvkkfqhlflkmkemn*qdvn*ilmatfkkhlif
yltalkpk*wmleen*pcai*vkpilksfkffiln*plfverklnlqnifk*ig*fqtkk
kkkkkkkkkkkkfffkkk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U13126-1 (Contig-U13126-1Q)
/CSM_Contig/Contig-U13126-1Q.Seq.d
(417 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U13126-1 (Contig-U13126-1Q) /CSM_Contig/Conti... 704 0.0
Contig-U10201-1 (Contig-U10201-1Q) /CSM_Contig/Conti... 36 0.029
Contig-U08797-1 (Contig-U08797-1Q) /CSM_Contig/Conti... 36 0.029
Contig-U04816-1 (Contig-U04816-1Q) /CSM_Contig/Conti... 36 0.029
Contig-U14438-1 (Contig-U14438-1Q) /CSM_Contig/Conti... 34 0.11
Contig-U13498-1 (Contig-U13498-1Q) /CSM_Contig/Conti... 34 0.11
Contig-U13080-1 (Contig-U13080-1Q) /CSM_Contig/Conti... 34 0.11
Contig-U12079-1 (Contig-U12079-1Q) /CSM_Contig/Conti... 34 0.11
Contig-U11214-1 (Contig-U11214-1Q) /CSM_Contig/Conti... 34 0.11
Contig-U06613-1 (Contig-U06613-1Q) /CSM_Contig/Conti... 34 0.11

>Contig-U13126-1 (Contig-U13126-1Q) /CSM_Contig/Contig-U13126-1Q.Seq.d
Length = 417

Score = 704 bits (355), Expect = 0.0
Identities = 355/355 (100%)
Strand = Plus / Plus


Query: 1 acaatatatttcatttattaaaaacaaataactaaaaatggcaattattaaaccaggagg 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 acaatatatttcatttattaaaaacaaataactaaaaatggcaattattaaaccaggagg 60


Query: 61 tcactacattgttccaacaaaaggtgaagaaatttcaacatttattcttgaaaatgaagg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tcactacattgttccaacaaaaggtgaagaaatttcaacatttattcttgaaaatgaagg 120


Query: 121 agatgaattagcaagatgtgaattaaatcttaatggcaacattcaagaaacacttgatat 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 agatgaattagcaagatgtgaattaaatcttaatggcaacattcaagaaacacttgatat 180


Query: 181 tttacctcacagcactcaaaccaaaatgatggatgttagaggaaaattaaccttgtgcaa 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 tttacctcacagcactcaaaccaaaatgatggatgttagaggaaaattaaccttgtgcaa 240


Query: 241 tataggtaaaacccatattaaaatcctttaaatttttcatactaaattaacctttatttg 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 tataggtaaaacccatattaaaatcctttaaatttttcatactaaattaacctttatttg 300


Query: 301 tagaaagaaaattaaatcttcaaaacatttttaaataaattggttaatttcaaac 355
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 tagaaagaaaattaaatcttcaaaacatttttaaataaattggttaatttcaaac 355


>Contig-U10201-1 (Contig-U10201-1Q) /CSM_Contig/Contig-U10201-1Q.Seq.d
Length = 1179

Score = 36.2 bits (18), Expect = 0.029
Identities = 18/18 (100%)
Strand = Plus / Minus


Query: 324 aacatttttaaataaatt 341
||||||||||||||||||
Sbjct: 94 aacatttttaaataaatt 77


>Contig-U08797-1 (Contig-U08797-1Q) /CSM_Contig/Contig-U08797-1Q.Seq.d
Length = 1214

Score = 36.2 bits (18), Expect = 0.029
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 330 tttaaataaattggttaa 347
||||||||||||||||||
Sbjct: 396 tttaaataaattggttaa 413


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: 7570
Number of Sequences: 6905
Number of extensions: 7570
Number of successful extensions: 924
Number of sequences better than 10.0: 288
length of query: 417
length of database: 5,674,871
effective HSP length: 16
effective length of query: 401
effective length of database: 5,564,391
effective search space: 2231320791
effective search space used: 2231320791
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 2008.12. 6
Homology vs DNA
Query= Contig-U13126-1 (Contig-U13126-1Q) /CSM_Contig/Contig-U13126-1Q.Seq.d
(417 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

(BJ370604) Dictyostelium discoideum cDNA clone:ddc54p18, 5' ... 704 0.0 1
(BJ363481) Dictyostelium discoideum cDNA clone:ddc26m20, 5' ... 692 0.0 1
(BJ378052) Dictyostelium discoideum cDNA clone:ddc26m20, 3' ... 668 0.0 1
(BJ370286) Dictyostelium discoideum cDNA clone:ddc53h16, 5' ... 86 1e-12 1
(AC025835) Homo sapiens chromosome 18, clone RP11-185H18, co... 42 0.027 4
(CJ365128) Molgula tectiformis cDNA, cleaving embryo clone:m... 50 0.063 1
(BW518158) Ciona savignyi cDNA, clone:csga014m04, 5'end, sin... 50 0.063 1
(AY689436) Deerpox virus W-848-83, complete genome. 40 0.066 5
(AY689437) Deerpox virus W-1170-84, complete genome. 40 0.072 5
(CR762385) Zebrafish DNA sequence from clone DKEY-245L10 in ... 36 0.13 5
(BX855621) Zebrafish DNA sequence from clone CH211-225C13. 36 0.15 2
(CR548635) Zebrafish DNA sequence from clone DKEY-67C22 in l... 36 0.15 2
(AC187128) Callithrix jacchus chromosome UNK clone CH259-94H... 40 0.17 6
(AC108090) Homo sapiens chromosome 5 clone CTD-2348N6, WORKI... 42 0.18 2
(EU168191) Heterosigma akashiwo strain CCMP 452 chloroplast,... 38 0.21 6
(AC034220) Homo sapiens chromosome 5 clone CTD-2049H4, compl... 48 0.22 2
(BX088525) Zebrafish DNA sequence from clone DKEYP-51F8 in l... 36 0.23 4
(CR847858) Zebrafish DNA sequence from clone DKEY-78H3 in li... 48 0.25 1
(BX546499) Zebrafish DNA sequence from clone DKEY-27P18 in l... 48 0.25 1
(BX088561) Zebrafish DNA sequence from clone DKEY-257G8 in l... 48 0.25 1
(AC202412) Pongo abelii BAC clone CH276-412I16 from chromoso... 48 0.25 1
(AC198795) Pongo abelii BAC clone CH276-112H21 from chromoso... 48 0.25 1
(AM435900) Vitis vinifera, whole genome shotgun sequence, co... 48 0.25 1
(AX799193) Sequence 42 from Patent WO03054011. 48 0.25 1
(AX182983) Sequence 736 from Patent WO0142511. 48 0.25 1
(AR645044) Sequence 736 from patent US 6869762. 48 0.25 1
(AR533672) Sequence 42 from patent US 6731505. 48 0.25 1
(L81762) Homo sapiens (subclone 8_h7 from P1 H17) DNA sequen... 48 0.25 1
(BC043424) Homo sapiens hypothetical LOC553103, mRNA (cDNA c... 48 0.25 1
(AC008599) Homo sapiens chromosome 5 clone CTB-104P14, compl... 48 0.25 1
(AC200380) Nomascus leucogenys leucogenys clone CH271-373H24... 48 0.25 1
(AC023861) Homo sapiens chromosome 5 clone RP11-772D18 map 5... 48 0.25 1
(AC011429) Homo sapiens chromosome 5 clone XXp1-545G1, WORKI... 48 0.25 1
(FH404104) CHO_OF4829xh22r1.ab1 CHO_OF4 Nicotiana tabacum ge... 48 0.25 1
(EJ329866) 1092963425109 Global-Ocean-Sampling_GS-28-01-01-1... 48 0.25 1
(AI457903) tj48b07.x1 Soares_NSF_F8_9W_OT_PA_P_S1 Homo sapie... 48 0.25 1
(AI377893) te60f08.x1 Soares_NFL_T_GBC_S1 Homo sapiens cDNA ... 48 0.25 1
(BM675512) UI-E-EJ1-ajg-b-19-0-UI.s1 UI-E-EJ1 Homo sapiens c... 48 0.25 1
(AA524418) ng44d02.s1 NCI_CGAP_Co3 Homo sapiens cDNA clone I... 48 0.25 1
(BW643424) Dugesia ryukyuensis mRNA, clone: Dr_sW_027_F07, 5... 32 0.29 3
(AF063866) Melanoplus sanguinipes entomopoxvirus, complete g... 38 0.33 7
(AY521251) Aleurodicus dugesii mitochondrion, complete genome. 42 0.35 3
(AE014831) Plasmodium falciparum 3D7 chromosome 10 section 3... 32 0.36 8
(AC010491) Homo sapiens chromosome 5 clone CTD-2335I23, comp... 42 0.37 3
(AC211911) Pongo abelii chromosome UNKNOWN clone CH276-430D9... 34 0.42 5
(AM448283) Vitis vinifera contig VV78X266102.4, whole genome... 38 0.46 5
(CL750131) OR_BBa0116C06.r OR_BBa Oryza nivara genomic clone... 34 0.50 3
(AC026749) Homo sapiens chromosome 5 clone RP11-415K6, compl... 42 0.58 3
(BX088565) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 46 0.58 3
(BX119930) Zebrafish DNA sequence from clone DKEY-18G4 in li... 46 0.58 3
(CL725625) OR_BBa0055K02.f OR_BBa Oryza nivara genomic clone... 34 0.68 3
(AC141094) Rattus norvegicus clone CH230-414B7, WORKING DRAF... 42 0.79 4
(AM466846) Vitis vinifera contig VV78X164962.3, whole genome... 42 0.80 2
(AC191233) Pan troglodytes BAC clone CH251-500L12 from chrom... 36 0.83 7
(EA102652) Sequence 35 from patent US 7195870. 36 0.86 4
(BD460304) Diagnosis of Diseases Associated with Cell Cycle. 36 0.86 4
(BD452226) Diagnosis of Diseases Associated with Cell Cycle. 36 0.86 4
(AX323555) Sequence 43 from Patent WO0192565. 36 0.86 4
(AX277872) Sequence 35 from Patent WO0177375. 36 0.86 4
(AX251840) Sequence 101 from Patent WO0168911. 36 0.86 4
(BX572075) Zebrafish DNA sequence from clone CH211-158N13 in... 44 0.89 2
(AC092706) Homo sapiens chromosome 18, clone RP11-658P14, co... 42 0.96 2
(CU463155) Zebrafish DNA sequence from clone CH73-17H3 in li... 46 0.98 1
(BX004869) Zebrafish DNA sequence from clone CH211-69E21 in ... 46 0.98 1
(AC206545) Pongo abelii BAC clone CH276-487H8 from chromosom... 46 0.98 1
(AC157496) Pan troglodytes BAC clone CH251-564E6 from chromo... 46 0.98 1
(DJ386598) Diagnosis of Diseases Associated with Metastasis. 46 0.98 1
(DJ080768) Neisseria Genomic Research. 46 0.98 1
(DD010736) Diagnosis of known genetic Parameters within the ... 46 0.98 1
(DD002107) Neisseria Genomic Sequences And Methods Of Their ... 46 0.98 1
(DD001186) Neisseria Genomic Sequences And Methods Of Their ... 46 0.98 1
(CS238319) Sequence 1 from Patent EP1605061. 46 0.98 1
(AX345555) Sequence 626 from Patent WO0200928. 46 0.98 1
(AX344651) Sequence 76 from Patent WO0200927. 46 0.98 1
(AX344568) Sequence 19 from Patent WO0200932. 46 0.98 1
(AX344567) Sequence 18 from Patent WO0200932. 46 0.98 1
(AX281394) Sequence 58 from Patent WO0177376. 46 0.98 1
(AX043922) Sequence 1 from Patent WO0066791. 46 0.98 1
(AC094789) Rattus norvegicus clone CH230-4C4, WORKING DRAFT ... 46 0.98 1
(CU459151) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 46 0.98 1
(AC215951) Saimiri boliviensis boliviensis clone CH254-55N22... 46 0.98 1
(AC212550) Ateles geoffroyi clone UC1-311E24, WORKING DRAFT ... 46 0.98 1
(AC173104) Bos taurus clone CH240-162D5, WORKING DRAFT SEQUE... 46 0.98 1
(AC171614) Bos taurus clone CH240-265P10, WORKING DRAFT SEQU... 46 0.98 1
(EK541967) 1095516063557 Global-Ocean-Sampling_GS-32-01-01-1... 46 0.98 1
(BX329537) human full-length cDNA 3-PRIME end of clone CS0DC... 46 0.98 1
(CP000381) Neisseria meningitidis 053442, complete genome. 46 0.98 1
(AM421808) Neisseria meningitidis serogroup C FAM18 complete... 46 0.98 1
(AL157959) Neisseria meningitidis serogroup A strain Z2491 c... 46 0.98 1
(AE002098) Neisseria meningitidis MC58, complete genome. 46 0.98 1
(BH139696) ENTNI84TR Entamoeba histolytica Sheared DNA Entam... 32 1.1 3
(AG882481) Oryza sativa Indica Group genomic DNA, BAC end se... 34 1.2 3
(DC223400) Plasmodium berghei strain ANKA cDNA clone:MZ00737... 42 1.2 2
(EV822603) BGBV-aaf09e04.g1 Snail_EST_pSMART Biomphalaria gl... 30 1.3 3
(AC012243) Homo sapiens clone RP11-16H6, WORKING DRAFT SEQUE... 38 1.3 3
(EK249844) 1095460272728 Global-Ocean-Sampling_GS-31-01-01-1... 38 1.3 2
(EF506945) Leptosira terrestris UTEX 333 chloroplast, comple... 42 1.4 6
(BX323070) Zebrafish DNA sequence from clone DKEY-45H7 in li... 32 1.5 5
(CP000721) Clostridium beijerinckii NCIMB 8052, complete gen... 34 1.5 17
(AL772220) Mouse DNA sequence from clone RP23-409N18 on chro... 42 1.5 4

>(BJ370604) Dictyostelium discoideum cDNA clone:ddc54p18, 5' end,
single read.
Length = 365

Score = 704 bits (355), Expect = 0.0
Identities = 355/355 (100%)
Strand = Plus / Plus


Query: 1 acaatatatttcatttattaaaaacaaataactaaaaatggcaattattaaaccaggagg 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 acaatatatttcatttattaaaaacaaataactaaaaatggcaattattaaaccaggagg 60


Query: 61 tcactacattgttccaacaaaaggtgaagaaatttcaacatttattcttgaaaatgaagg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tcactacattgttccaacaaaaggtgaagaaatttcaacatttattcttgaaaatgaagg 120


Query: 121 agatgaattagcaagatgtgaattaaatcttaatggcaacattcaagaaacacttgatat 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 agatgaattagcaagatgtgaattaaatcttaatggcaacattcaagaaacacttgatat 180


Query: 181 tttacctcacagcactcaaaccaaaatgatggatgttagaggaaaattaaccttgtgcaa 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 tttacctcacagcactcaaaccaaaatgatggatgttagaggaaaattaaccttgtgcaa 240


Query: 241 tataggtaaaacccatattaaaatcctttaaatttttcatactaaattaacctttatttg 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 tataggtaaaacccatattaaaatcctttaaatttttcatactaaattaacctttatttg 300


Query: 301 tagaaagaaaattaaatcttcaaaacatttttaaataaattggttaatttcaaac 355
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 tagaaagaaaattaaatcttcaaaacatttttaaataaattggttaatttcaaac 355

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 603,650,153
Number of extensions: 40755377
Number of successful extensions: 3898571
Number of sequences better than 10.0: 390
Length of query: 417
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 394
Effective length of database: 93,106,754,628
Effective search space: 36684061323432
Effective search space used: 36684061323432
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 7. 6
Homology vs Protein
Query= Contig-U13126-1 (Contig-U13126-1Q) /CSM_Contig/Contig-U13126-1Q.Seq.d
(417 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

(Q54GM5) RecName: Full=Uncharacterized protein DDB_G0290041; 159 4e-38
BT011696_1(BT011696|pid:none) Arabidopsis thaliana At5g53150 gen... 32 6.9

>(Q54GM5) RecName: Full=Uncharacterized protein DDB_G0290041;
Length = 77

Score = 159 bits (401), Expect = 4e-38
Identities = 77/77 (100%), Positives = 77/77 (100%)
Frame = +2

Query: 38 MAIIKPGGHYIVPTKGEEISTFILENEGDELARCELNLNGNIQETLDILPHSTQTKMMDV 217
MAIIKPGGHYIVPTKGEEISTFILENEGDELARCELNLNGNIQETLDILPHSTQTKMMDV
Sbjct: 1 MAIIKPGGHYIVPTKGEEISTFILENEGDELARCELNLNGNIQETLDILPHSTQTKMMDV 60

Query: 218 RGKLTLCNIGKTHIKIL 268
RGKLTLCNIGKTHIKIL
Sbjct: 61 RGKLTLCNIGKTHIKIL 77

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: 541,007,273
Number of extensions: 9260025
Number of successful extensions: 16115
Number of sequences better than 10.0: 2
Number of HSP's gapped: 16115
Number of HSP's successfully gapped: 2
Length of query: 139
Length of database: 1,051,180,864
Length adjustment: 103
Effective length of query: 36
Effective length of database: 717,815,287
Effective search space: 25841350332
Effective search space used: 25841350332
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: 29 (15.8 bits)

PSORT

psg: 0.81 gvh: 0.35 alm: 0.56 top: 0.53 tms: 0.00 mit: 0.25 mip: 0.00
nuc: 0.00 erl: 0.00 erm: 0.20 pox: 0.00 px2: 0.00 vac: 0.00 rnp: 0.00
act: 0.00 caa: 0.00 yqr: 0.00 tyr: 0.00 leu: 0.00 gpi: 0.00 myr: 0.00
dna: 0.00 rib: 0.00 bac: 0.00 m1a: 0.00 m1b: 0.00 m2 : 0.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 1.00

44.0 %: nuclear
32.0 %: cytoplasmic
16.0 %: cytoskeletal
4.0 %: mitochondrial
4.0 %: peroxisomal

>> prediction for Contig-U13126-1 is nuc

VS (DIR, S) 0
VH (FL, L) 0
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) 3
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0