Contig-U09336-1
Contig ID Contig-U09336-1
Contig update 2002. 9.13
Contig sequence
>Contig-U09336-1 (Contig-U09336-1Q) /CSM_Contig/Contig-U09336-1Q.Seq.d
CAACAATAATTAATTAAAATCTTTATTTTTTTTTTATTGTTAATAATAAA
AAAAATAATCACCTTCACACACACAACACACACACCAATCTTCACTGTAA
ATAGATTTGTAAATTACTAAAAAAAAAATAAAATATAAAAAAAAAAAAGA
TGGAACAAATTGATAAAATAGAAATACTTCTAAGAGAATATTCATATTTA
GCAATGGGAAAAATAAGAGAGGTAGAAATATTATTAAAGTCATCAAGATT
ATTTGAAAATATACCAAAACAATACCACGATCAATGTGTAGTTGGTTTAT
TTGCCATTTCAATTATTTTAGTTTCCTTAATGTTTTCATTAATCTTTAAA
AAAGGTTCATCAAATAAAAAAAAACAACTTAAAACACAAAATAAACAGCA
AACACCAATTAAATCACCAATTAAACAACAACAAACTCCAAATAAGAAAC
AACAAACTCCAAATAAACAACATCAACAAACTCCAAACAAAAATCAAACT
CCAAATAAAAATCAAACTCCAAATAAAAATCAAACTCCAATCAAATCACC
AAAGGTTTCATCAAATAAAT----------TTTTTTTCNTTTGACCCTTT
TTGGGTTTNTTTGCTTTTTTTTTTTGAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAATTTAGCAAGTATCAATATTATGATTAATA
ATATCTAATTATAATAAATTTTAAAC

Gap gap included
Contig length 716
Chromosome number (1..6, M) 5
Chromosome length 5062330
Start point 1024296
End point 1025014
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 2
Link to clone list U09336
List of clone(s)

est1=SSD211F,1,571
est2=SSD211Z,572,718
Translated Amino Acid sequence
tiin*nlyfffivnnkknnhlhthnthtnlhck*ickllkkk*NIKKKKMEQIDKIEILL
REYSYLAMGKIREVEILLKSSRLFENIPKQYHDQCVVGLFAISIILVSLMFSLIFKKGSS
NKKKQLKTQNKQQTPIKSPIKQQQTPNKKQQTPNKQHQQTPNKNQTPNKNQTPNKNQTPI
KSPKVSSNK---

---FFXLTLFGFXCFFFLKKKKKKKKKKKKKKKFSKYQYYD**yliiinfk


Translated Amino Acid sequence (All Frames)
Frame A:
qq*likififfllliikkiitfthtthtpiftvnrfvny*kknki*kkkrwnklik*kyf
*enihi*qwek*er*kyy*shqdylkiyqnnttinv*lvylpfqlf*fp*cfh*slkkvh
qikknnlkhkinskhqlnhqlnnnklqirnnklqinninklqtkiklqikiklqikiklq
snhqrfhqin---

---ffsfdpfwvxllfffekkkkkkkkkkkkkki*qvsil*liisnynkf*

Frame B:
nnn*lkslfffyc***kk*spshtqhthqssl*idl*itkkkikykkkkdgtn**nrnts
krififsngknkrgrniikvikii*kytktiprsmcswfichfnyfsflnvfinl*krfi
k*kktt*ntk*tantn*itn*tttnsk*ettnsk*ttstnskqksnsk*ksnsk*ksnsn
qitkgfik*---

---FFXLTLFGFXCFFFLKKKKKKKKKKKKKKKFSKYQYYD**yliiinfk

Frame C:
tiin*nlyfffivnnkknnhlhthnthtnlhck*ickllkkk*NIKKKKMEQIDKIEILL
REYSYLAMGKIREVEILLKSSRLFENIPKQYHDQCVVGLFAISIILVSLMFSLIFKKGSS
NKKKQLKTQNKQQTPIKSPIKQQQTPNKKQQTPNKQHQQTPNKNQTPNKNQTPNKNQTPI
KSPKVSSNK---

---ffx*pflgxfafff*kkkkkkkkkkkkkknlasiniminni*l**iln

own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U09336-1 (Contig-U09336-1Q)
/CSM_Contig/Contig-U09336-1Q.Seq.d
(726 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U09336-1 (Contig-U09336-1Q) /CSM_Contig/Conti... 430 e-121
Contig-U06957-1 (Contig-U06957-1Q) /CSM_Contig/Conti... 40 0.003
Contig-U14386-1 (Contig-U14386-1Q) /CSM_Contig/Conti... 38 0.013
Contig-U13423-1 (Contig-U13423-1Q) /CSM_Contig/Conti... 38 0.013
Contig-U12627-1 (Contig-U12627-1Q) /CSM_Contig/Conti... 38 0.013
Contig-U12404-1 (Contig-U12404-1Q) /CSM_Contig/Conti... 38 0.013
Contig-U11758-1 (Contig-U11758-1Q) /CSM_Contig/Conti... 38 0.013
Contig-U11681-1 (Contig-U11681-1Q) /CSM_Contig/Conti... 38 0.013
Contig-U11227-1 (Contig-U11227-1Q) /CSM_Contig/Conti... 38 0.013
Contig-U11146-1 (Contig-U11146-1Q) /CSM_Contig/Conti... 38 0.013

>Contig-U09336-1 (Contig-U09336-1Q) /CSM_Contig/Contig-U09336-1Q.Seq.d
Length = 726

Score = 430 bits (217), Expect = e-121
Identities = 217/217 (100%)
Strand = Plus / Plus


Query: 149 gatggaacaaattgataaaatagaaatacttctaagagaatattcatatttagcaatggg 208
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 149 gatggaacaaattgataaaatagaaatacttctaagagaatattcatatttagcaatggg 208


Query: 209 aaaaataagagaggtagaaatattattaaagtcatcaagattatttgaaaatataccaaa 268
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 209 aaaaataagagaggtagaaatattattaaagtcatcaagattatttgaaaatataccaaa 268


Query: 269 acaataccacgatcaatgtgtagttggtttatttgccatttcaattattttagtttcctt 328
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 269 acaataccacgatcaatgtgtagttggtttatttgccatttcaattattttagtttcctt 328


Query: 329 aatgttttcattaatctttaaaaaaggttcatcaaat 365
|||||||||||||||||||||||||||||||||||||
Sbjct: 329 aatgttttcattaatctttaaaaaaggttcatcaaat 365


Score = 109 bits (55), Expect = 4e-24
Identities = 55/55 (100%)
Strand = Plus / Plus


Query: 672 tttagcaagtatcaatattatgattaataatatctaattataataaattttaaac 726
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 672 tttagcaagtatcaatattatgattaataatatctaattataataaattttaaac 726


Score = 69.9 bits (35), Expect = 4e-12
Identities = 55/65 (84%)
Strand = Plus / Plus


Query: 1 caacaataattaattaaaatctttannnnnnnnnnattgttaataataaaaaaaataatc 60
||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 1 caacaataattaattaaaatctttattttttttttattgttaataataaaaaaaataatc 60


Query: 61 acctt 65
|||||
Sbjct: 61 acctt 65


Score = 65.9 bits (33), Expect = 6e-11
Identities = 33/33 (100%)
Strand = Plus / Plus


Query: 86 caatcttcactgtaaatagatttgtaaattact 118
|||||||||||||||||||||||||||||||||
Sbjct: 86 caatcttcactgtaaatagatttgtaaattact 118


Score = 34.2 bits (17), Expect = 0.20
Identities = 17/17 (100%)
Strand = Plus / Plus


Query: 554 ggtttcatcaaataaat 570
|||||||||||||||||
Sbjct: 554 ggtttcatcaaataaat 570


>Contig-U06957-1 (Contig-U06957-1Q) /CSM_Contig/Contig-U06957-1Q.Seq.d
Length = 365

Score = 40.1 bits (20), Expect = 0.003
Identities = 23/24 (95%)
Strand = Plus / Plus


Query: 36 attgttaataataaaaaaaataat 59
|||||| |||||||||||||||||
Sbjct: 125 attgttgataataaaaaaaataat 148


>Contig-U14386-1 (Contig-U14386-1Q) /CSM_Contig/Contig-U14386-1Q.Seq.d
Length = 509

Score = 38.2 bits (19), Expect = 0.013
Identities = 19/19 (100%)
Strand = Plus / Plus


Query: 41 taataataaaaaaaataat 59
|||||||||||||||||||
Sbjct: 161 taataataaaaaaaataat 179


Database: CSM
Posted date: Jun 9, 2004 7:35 PM
Number of letters in database: 5,674,871
Number of sequences in database: 6905

Lambda K H
1.37 0.711 1.31

Gapped
Lambda K H
1.37 0.711 1.31


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 16,272
Number of Sequences: 6905
Number of extensions: 16272
Number of successful extensions: 2638
Number of sequences better than 10.0: 466
length of query: 726
length of database: 5,674,871
effective HSP length: 16
effective length of query: 710
effective length of database: 5,564,391
effective search space: 3950717610
effective search space used: 3950717610
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 2008.11.15
Homology vs DNA
Query= Contig-U09336-1 (Contig-U09336-1Q) /CSM_Contig/Contig-U09336-1Q.Seq.d
(726 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

(AU072025) Dictyostelium discoideum slug cDNA, clone SSD211. 182 1e-62 3
(C92190) Dictyostelium discoideum slug cDNA, clone SSD211. 109 1e-19 1
(EJ974749) 1093022108552 Global-Ocean-Sampling_GS-30-02-01-1... 56 0.002 1
(EJ186846) 1092344158012 Global-Ocean-Sampling_GS-27-01-01-1... 56 0.002 1
(EJ993868) 1093023071879 Global-Ocean-Sampling_GS-30-02-01-1... 52 0.030 1
(AF270939) Heterodoxus macropus mitochondrion, complete genome. 46 0.45 3
(FH395147) CHO_OF4296xo11r2.ab1 CHO_OF4 Nicotiana tabacum ge... 48 0.46 1
(FH395082) CHO_OF4296xo11r1.ab1 CHO_OF4 Nicotiana tabacum ge... 48 0.46 1
(FH395001) CHO_OF4296xo11f1.ab1 CHO_OF4 Nicotiana tabacum ge... 48 0.46 1
(FH199897) CHO_OF3068xg15r1.ab1 CHO_OF3 Nicotiana tabacum ge... 48 0.46 1
(ER520953) 1093015573275 Global-Ocean-Sampling_GS-35-01-01-1... 48 0.46 1
(EJ325960) 1092963383848 Global-Ocean-Sampling_GS-28-01-01-1... 48 0.46 1
(EJ257695) 1095349019913 Global-Ocean-Sampling_GS-27-01-01-1... 48 0.46 1
(ER365849) 1093022018400 Global-Ocean-Sampling_GS-34-01-01-1... 32 1.3 3
(CT025622) Mouse DNA sequence from clone RP23-443N15 on chro... 46 1.8 1
(AC120548) Mus musculus chromosome 17, clone RP23-211H11, co... 46 1.8 1
(AC177665) Strongylocentrotus purpuratus clone R3-1017J15, W... 46 1.8 1
(AC168819) Strongylocentrotus purpuratus clone R3-13E5, WORK... 46 1.8 1
(DX403434) GK_Sa0004L24.b1 Gossypioides kirkii WGS library G... 46 1.8 1
(DN583731) 90930464 Sea Urchin primary mesenchyme cell cDNA ... 46 1.8 1
(CU104699) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 34 3.5 2
(AJ925886) Theileria annulata EST, clone tam009c04_q1k. 34 3.6 3
(AP010500) Lotus japonicus genomic DNA, chromosome 5, clone:... 34 3.6 2
(BX247898) Zebrafish DNA sequence from clone CH211-202M20 in... 32 3.6 2
(CU024872) Zebrafish DNA sequence from clone DKEY-58J5 in li... 34 3.6 2
(FE172117) LV_NC_RA02H16f Litopenaeus vannamei nerve cord cD... 40 3.7 2
(AM458785) Vitis vinifera contig VV78X260957.3, whole genome... 32 4.0 2
(AZ546064) ENTDZ55TF Entamoeba histolytica Sheared DNA Entam... 36 4.5 2
(EJ868789) 1093018299689 Global-Ocean-Sampling_GS-30-02-01-1... 42 5.1 2
(CP000728) Clostridium botulinum F str. Langeland, complete ... 38 5.3 14
(AX392733) Sequence 23 from Patent WO0212526. 36 5.4 5
(AR707080) Sequence 23 from patent US 6933145. 36 5.4 5
(CC479882) CH240_307E23.T7 CHORI-240 Bos taurus genomic clon... 40 6.1 2
(D50453) Bacillus subtilis DNA, 25-36 degree region. 38 6.5 3
(CG989198) CH240_146M22.TJ CHORI-240 Bos taurus genomic clon... 40 7.1 2
(CR382336) Zebrafish DNA sequence from clone CH211-125A6 in ... 44 7.2 1
(BX004837) Zebrafish DNA sequence from clone CH211-134F7 in ... 44 7.2 1
(BC077427) Xenopus laevis MGC82198 protein, mRNA (cDNA clone... 44 7.2 1
(AC147169) Xenopus tropicalis clone CH216-149I15, complete s... 44 7.2 1
(AC121981) Mus musculus BAC clone RP24-290K9 from 5, complet... 44 7.2 1
(AC193189) Pan troglodytes BAC clone CH251-550B5 from chromo... 44 7.2 1
(AC192443) Pan troglodytes BAC clone CH251-440J19 from chrom... 44 7.2 1
(AC188939) Pan troglodytes BAC clone CH251-496F1 from chromo... 44 7.2 1
(AP006689) Lotus japonicus genomic DNA, chromosome 4, clone:... 44 7.2 1
(AC213153) Populus trichocarpa clone POP047-O16, complete se... 44 7.2 1
(AL357312) Human DNA sequence from clone RP11-390F10 on chro... 44 7.2 1
(AC009415) Homo sapiens BAC clone RP11-576H9 from 7, complet... 44 7.2 1
(AC162706) Bos taurus clone CH240-116H19, WORKING DRAFT SEQU... 44 7.2 1
(AC153062) Bos taurus clone CH240-16P11, WORKING DRAFT SEQUE... 44 7.2 1
(AC148065) Bos taurus clone RP42-442E1, WORKING DRAFT SEQUEN... 44 7.2 1
(AC147294) Pan troglodytes chromosome UNK clone RP43-66I12, ... 44 7.2 1
(AC136952) Danio rerio clone ch211-31g3, WORKING DRAFT SEQUE... 44 7.2 1
(CU582928) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 7.2 1
(CU467867) Zebrafish DNA sequence *** SEQUENCING CANCELLED *... 44 7.2 1
(AL139337) Human DNA sequence *** SEQUENCING CANCELLED *** f... 44 7.2 1
(AC230244) Bos taurus clone CH240-516H4, WORKING DRAFT SEQUE... 44 7.2 1
(AC222419) Bos taurus clone CH240-417M4, WORKING DRAFT SEQUE... 44 7.2 1
(AC181422) Strongylocentrotus purpuratus clone R3-1112C5, WO... 44 7.2 1
(AC180221) Strongylocentrotus purpuratus clone R3-3008A8, WO... 44 7.2 1
(AC179370) Strongylocentrotus purpuratus clone R3-59K22, WOR... 44 7.2 1
(AC177551) Strongylocentrotus purpuratus clone R3-1026L10, W... 44 7.2 1
(AC176233) Strongylocentrotus purpuratus clone R3-3005E14, W... 44 7.2 1
(AC176117) Strongylocentrotus purpuratus clone R3-3023E5, WO... 44 7.2 1
(AC164415) Mus musculus chromosome 5 clone RP24-346M10 map 5... 44 7.2 1
(AQ483528) RPCI-11-240F12.TJ RPCI-11 Homo sapiens genomic cl... 44 7.2 1
(ER387181) 1094428685785 Global-Ocean-Sampling_GS-34-01-01-1... 44 7.2 1
(EK273456) 1095462267000 Global-Ocean-Sampling_GS-31-01-01-1... 44 7.2 1
(EJ866181) 1093018279922 Global-Ocean-Sampling_GS-30-02-01-1... 44 7.2 1
(EJ820164) 1093017534189 Global-Ocean-Sampling_GS-30-02-01-1... 44 7.2 1
(EJ814827) 1093017510201 Global-Ocean-Sampling_GS-30-02-01-1... 44 7.2 1
(EJ804023) 1093017446733 Global-Ocean-Sampling_GS-30-02-01-1... 44 7.2 1
(EJ772612) 1092973902818 Global-Ocean-Sampling_GS-30-02-01-1... 44 7.2 1
(EJ760498) 1092963127612 Global-Ocean-Sampling_GS-30-02-01-1... 44 7.2 1
(EJ753575) 1092963057605 Global-Ocean-Sampling_GS-30-02-01-1... 44 7.2 1
(EJ751441) 1092963038566 Global-Ocean-Sampling_GS-30-02-01-1... 44 7.2 1
(EJ747624) 1092963011319 Global-Ocean-Sampling_GS-30-02-01-1... 44 7.2 1
(EJ696617) 1092956020982 Global-Ocean-Sampling_GS-30-02-01-1... 44 7.2 1
(EJ205364) 1092344339648 Global-Ocean-Sampling_GS-27-01-01-1... 44 7.2 1
(EI791910) CHORI518019A20TR BAC library from the breast cell... 44 7.2 1
(ED729520) GM_WBb0085P23.r GM_WBb Glycine max genomic clone ... 44 7.2 1
(DX476824) Cpl19059 Papaya Genomic DNA BAC Library Carica pa... 44 7.2 1
(DE449872) Bombyx mori genomic DNA, Fosmid clone:GBMFno42_a0... 44 7.2 1
(CG843137) Ynhw3751 HW-YUBAC Bos taurus genomic clone HW-YUB... 44 7.2 1
(CG674794) trs2526 trs Aegilops tauschii genomic clone trs08... 44 7.2 1
(BX195683) Danio rerio genomic clone DKEY-214O10, genomic su... 44 7.2 1
(CJ422261) Molgula tectiformis cDNA, larva clone:mtlv009l02,... 44 7.2 1
(CJ344937) Molgula tectiformis cDNA, embryo just before hatc... 44 7.2 1
(BQ099258) ph28d06.y2 Ostertagia ostertagi L3 pAMP1 v1 Oster... 44 7.2 1
(BG019700) dc67b01.x1 NICHD_XGC_Emb1 Xenopus laevis cDNA clo... 44 7.2 1
(AC111709) Rattus norvegicus clone CH230-40H1, WORKING DRAFT... 36 8.7 5
(AF250284) Amsacta moorei entomopoxvirus, complete genome. 36 8.9 8
(AJ011856) Saccharomyces cerevisiae complete mitochondrial g... 36 9.0 6
(EU004203) Saccharomyces cerevisiae YJM789 mitochondrion, co... 36 9.2 6
(AC025302) Homo sapiens clone RP11-680K19, WORKING DRAFT SEQ... 38 9.4 3

>(AU072025) Dictyostelium discoideum slug cDNA, clone SSD211.
Length = 240

Score = 182 bits (92), Expect(3) = 1e-62
Identities = 92/92 (100%)
Strand = Plus / Plus


Query: 149 gatggaacaaattgataaaatagaaatacttctaagagaatattcatatttagcaatggg 208
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 149 gatggaacaaattgataaaatagaaatacttctaagagaatattcatatttagcaatggg 208


Query: 209 aaaaataagagaggtagaaatattattaaagt 240
||||||||||||||||||||||||||||||||
Sbjct: 209 aaaaataagagaggtagaaatattattaaagt 240

Score = 65.9 bits (33), Expect(3) = 1e-62
Identities = 33/33 (100%)
Strand = Plus / Plus


Query: 86 caatcttcactgtaaatagatttgtaaattact 118
|||||||||||||||||||||||||||||||||
Sbjct: 86 caatcttcactgtaaatagatttgtaaattact 118

Score = 50.1 bits (25), Expect(3) = 1e-62
Identities = 25/25 (100%)
Strand = Plus / Plus


Query: 1 caacaataattaattaaaatcttta 25
|||||||||||||||||||||||||
Sbjct: 1 caacaataattaattaaaatcttta 25

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 515,230,175
Number of extensions: 35305371
Number of successful extensions: 3411097
Number of sequences better than 10.0: 94
Length of query: 726
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 702
Effective length of database: 97,308,875,965
Effective search space: 68310830927430
Effective search space used: 68310830927430
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 6.25
Homology vs Protein
Query= Contig-U09336-1 (Contig-U09336-1Q) /CSM_Contig/Contig-U09336-1Q.Seq.d
(726 letters)

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

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

***** No hits found ******

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: 489,380,969
Number of extensions: 5018251
Number of successful extensions: 15504
Number of sequences better than 10.0: 0
Number of HSP's gapped: 15356
Number of HSP's successfully gapped: 0
Length of query: 242
Length of database: 1,040,966,779
Length adjustment: 125
Effective length of query: 117
Effective length of database: 640,431,154
Effective search space: 74930445018
Effective search space used: 74930445018
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: 31 (16.5 bits)

PSORT

psg: 0.49 gvh: 0.36 alm: 0.17 top: 0.83 tms: 0.07 mit: 0.20 mip: 0.03
nuc: 0.77 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: 1.00 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: 1.00 m2 : 0.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 0.00

52.0 %: nuclear
24.0 %: cytoplasmic
8.0 %: Golgi
4.0 %: mitochondrial
4.0 %: vesicles of secretory system
4.0 %: peroxisomal
4.0 %: endoplasmic reticulum

>> prediction for Contig-U09336-1 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) 1
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