Contig-U04448-1
Contig ID Contig-U04448-1
Contig update 2002. 9.13
Contig sequence
>Contig-U04448-1 (Contig-U04448-1Q) /CSM_Contig/Contig-U04448-1Q.Seq.d
TAAATTATTTATAATTAAATAAATAATTAAATAAATAAATAAATTTAAAT
AAATTTATTTTTATTTTCAAAAAAAAAAAATAAAAATAAAAATTTAAAAA
AAGATTTTTTTTTTTTAAACACAATATATTATTTTTATTCACACACAAAT
TTTCACTGATACACACAAATAATTAGCGCGCAGGTGAGATAAATAAAAAT
GTCAAAACATAATATAATTGTTGGAGTCGTTACAATTCTCTTTTTAGGAG
CAGTCATTGGAACTAAATGGTCTATTCATTCTTACCAGATACCAATTGGT
ATCCAATTCCCATTCAGTTTAGCATCCTCTATAACTTTTGGTATCAATAG
AGGTGGCAATAATGGGAGACGGAGGTACAAAATATTGATCTGGACATACA
AACTCAAAAACTGACAATACTCTTTACACTTGTTATTGCCTTCGTAGTTG
TATCTTTTGCATATGCTTGTATTATGCTTTTAATTACATTAGTTGCATTA
TTCAAACGTGTTCATAAAAAAAGGTAGAAAAGGCATTATTTGTTATGTCA
ATCTTGTTATGTATTTTCAATGTACTTTCAACTTTATTATTATTAAGATT
AAACAAAGCACTCTGTGAAGATGCCACTGATGGTCTTTCATTACCATTTT
CAATGGAGAAAAGTATTCTTGATTCTGGTATCTGTAGTAAATTCAAAGGA
AGTGATTCCCTCTTTTCTTGGGGTCCATCCATCGGTTGGTATTGCTCACT
TGCAGCTGCAATTGTCTCATTTATTACTATTTTCTTGACTTCTTCCATCT
TACACACTCGTAAATTCGGATATCATGTCATTCACTAGAGACTCTTATGA
GAGTTTAAAAAAAAAAAAAAAACTGGAAAAAAAAAAAAAAATAATAATAA
TAAATCATTATTATATTTGTAAACTATAAAAATAAATAAAACAAAACAAA
ATAAAATAAAAAAAAAAAAAAAAAAAAAAAAAA

Gap no gap
Contig length 983
Chromosome number (1..6, M) 4
Chromosome length 5430582
Start point 3176037
End point 3175054
Strand (PLUS/MINUS) MINUS
Number of clones 5
Number of EST 6
Link to clone list U04448
List of clone(s)

est1=SSL749F,1,649
est2=SSL749Z,154,984
est3=SSL665Z,223,957
est4=SSL692Z,250,957
est5=VSG636F,482,886
est6=SSA680Z,484,872
Translated Amino Acid sequence
klfiik*iik*inkfk*iyfyfqkkkikiki*kkifff*tqyiifihtqiftdthk*lar
r*dk*kcqnii*lleslqfsf*eqslelnglfiltryqlvsnshsv*hpl*llvsievai
mgdggtky*sghtnsktdntlytcyclrscifciclyyafnyisciiqtcs*KKVEKALF
VMSILLCIFNVLSTLLLLRLNKALCEDATDGLSLPFSMEKSILDSGICSKFKGSDSLFSW
GPSIGWYCSLAAAIVSFITIFLTSSILHTRKFGYHVIH*rll*efkkkkktgkkkknnnn
ksllyl*tikinktkqnkikkkkkkkk


Translated Amino Acid sequence (All Frames)
Frame A:
*iiyn*inn*ink*i*inlflfskkknknknlkkdffflntiyyfyshtnfh*ytqiisa
qvr*ikmskhniivgvvtilflgavigtkwsihsyqipigiqfpfslassitfginrggn
ngrrrykiliwtyklkn*qyslhlllps*lyllhmlvlcf*lh*lhysnvfikkgrkgii
cyvnlvmyfqctfnfiiikikqstl*rch*wsfitifngekys*fwyl**iqrk*fplfl
gsihrlvlltcscncliyyyfldffhlths*irischsletlmrv*kkkknwkkkkk***
*iiiifvnyknk*nktk*nkkkkkkkk


Frame B:
klfiik*iik*inkfk*iyfyfqkkkikiki*kkifff*tqyiifihtqiftdthk*lar
r*dk*kcqnii*lleslqfsf*eqslelnglfiltryqlvsnshsv*hpl*llvsievai
mgdggtky*sghtnsktdntlytcyclrscifciclyyafnyisciiqtcs*KKVEKALF
VMSILLCIFNVLSTLLLLRLNKALCEDATDGLSLPFSMEKSILDSGICSKFKGSDSLFSW
GPSIGWYCSLAAAIVSFITIFLTSSILHTRKFGYHVIH*rll*efkkkkktgkkkknnnn
ksllyl*tikinktkqnkikkkkkkkk


Frame C:
nyl*lnk*lnk*inlnkfififkkkk*k*kfkkrffffkhnilflfthkfslihtnn*ra
geinknvkt*yncwsrynslfrsshwn*mvysflpdtnwypipiqfsilynfwyq*rwq*
wetevqnidldiqtqkltilftlviafvvvsfayacimllitlvalfkrvhkkr*krhyl
lcqscyvfsmyfqlyyy*d*tkhsvkmplmvfhyhfqwrkvflilvsvvnskevipsflg
vhpsvgiahlqlqlshlllfs*llpsytlvnsdimsftrdsyeslkkkkklekkkkiiii
nhyyickl*k*ikqnkik*kkkkkkkk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U04448-1 (Contig-U04448-1Q)
/CSM_Contig/Contig-U04448-1Q.Seq.d
(983 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U04448-1 (Contig-U04448-1Q) /CSM_Contig/Conti... 1425 0.0
Contig-U05804-1 (Contig-U05804-1Q) /CSM_Contig/Conti... 38 0.018
Contig-U03226-1 (Contig-U03226-1Q) /CSM_Contig/Conti... 38 0.018
Contig-U14821-1 (Contig-U14821-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U12190-1 (Contig-U12190-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U11744-1 (Contig-U11744-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U11659-1 (Contig-U11659-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U09174-1 (Contig-U09174-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U05120-1 (Contig-U05120-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U13543-1 (Contig-U13543-1Q) /CSM_Contig/Conti... 34 0.27

>Contig-U04448-1 (Contig-U04448-1Q) /CSM_Contig/Contig-U04448-1Q.Seq.d
Length = 983

Score = 1425 bits (719), Expect = 0.0
Identities = 733/740 (99%)
Strand = Plus / Plus


Query: 117 aaacacaatatattatttttattcacacacaaattttcactgatacacacaaataattag 176
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 117 aaacacaatatattatttttattcacacacaaattttcactgatacacacaaataattag 176


Query: 177 cgcgcaggtgagataaataaaaatgtcaaaacataatataattgttggagtcgttacaat 236
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 177 cgcgcaggtgagataaataaaaatgtcaaaacataatataattgttggagtcgttacaat 236


Query: 237 tctctttttaggagcagtcattggaactaaatggtctattcattcttaccagataccaat 296
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 237 tctctttttaggagcagtcattggaactaaatggtctattcattcttaccagataccaat 296


Query: 297 tggtatccaattcccattcagtttagcatcctctataacttttggtatcaatagaggtgg 356
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 297 tggtatccaattcccattcagtttagcatcctctataacttttggtatcaatagaggtgg 356


Query: 357 caataatgggagacggaggtacaaaatattgatctggacatacaaactcaaaaactgaca 416
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 357 caataatgggagacggaggtacaaaatattgatctggacatacaaactcaaaaactgaca 416


Query: 417 atactctttacacttgttattgccttcgtagttgtatcttttgcatatgcttgtattatg 476
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 417 atactctttacacttgttattgccttcgtagttgtatcttttgcatatgcttgtattatg 476


Query: 477 cttttaattacattagttgcattattcaaacgtgttcatnnnnnnnggtagaaaaggcat 536
||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 477 cttttaattacattagttgcattattcaaacgtgttcataaaaaaaggtagaaaaggcat 536


Query: 537 tatttgttatgtcaatcttgttatgtattttcaatgtactttcaactttattattattaa 596
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 537 tatttgttatgtcaatcttgttatgtattttcaatgtactttcaactttattattattaa 596


Query: 597 gattaaacaaagcactctgtgaagatgccactgatggtctttcattaccattttcaatgg 656
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 597 gattaaacaaagcactctgtgaagatgccactgatggtctttcattaccattttcaatgg 656


Query: 657 agaaaagtattcttgattctggtatctgtagtaaattcaaaggaagtgattccctctttt 716
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 657 agaaaagtattcttgattctggtatctgtagtaaattcaaaggaagtgattccctctttt 716


Query: 717 cttggggtccatccatcggttggtattgctcacttgcagctgcaattgtctcatttatta 776
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 717 cttggggtccatccatcggttggtattgctcacttgcagctgcaattgtctcatttatta 776


Query: 777 ctattttcttgacttcttccatcttacacactcgtaaattcggatatcatgtcattcact 836
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 777 ctattttcttgacttcttccatcttacacactcgtaaattcggatatcatgtcattcact 836


Query: 837 agagactcttatgagagttt 856
||||||||||||||||||||
Sbjct: 837 agagactcttatgagagttt 856


Score = 32.2 bits (16), Expect = 1.1
Identities = 16/16 (100%)
Strand = Plus / Minus


Query: 288 gataccaattggtatc 303
||||||||||||||||
Sbjct: 303 gataccaattggtatc 288


>Contig-U05804-1 (Contig-U05804-1Q) /CSM_Contig/Contig-U05804-1Q.Seq.d
Length = 1071

Score = 38.2 bits (19), Expect = 0.018
Identities = 19/19 (100%)
Strand = Plus / Minus


Query: 583 tttattattattaagatta 601
|||||||||||||||||||
Sbjct: 28 tttattattattaagatta 10


>Contig-U03226-1 (Contig-U03226-1Q) /CSM_Contig/Contig-U03226-1Q.Seq.d
Length = 377

Score = 38.2 bits (19), Expect = 0.018
Identities = 22/23 (95%)
Strand = Plus / Minus


Query: 769 atttattactattttcttgactt 791
|||| ||||||||||||||||||
Sbjct: 310 atttgttactattttcttgactt 288


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: 25,294
Number of Sequences: 6905
Number of extensions: 25294
Number of successful extensions: 3427
Number of sequences better than 10.0: 137
length of query: 983
length of database: 5,674,871
effective HSP length: 16
effective length of query: 967
effective length of database: 5,564,391
effective search space: 5380766097
effective search space used: 5380766097
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. 6.21
Homology vs DNA
Query= Contig-U04448-1 (Contig-U04448-1Q) /CSM_Contig/Contig-U04448-1Q.Seq.d
(983 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

(C93740) Dictyostelium discoideum slug cDNA, clone SSL665. 406 0.0 7
(C93765) Dictyostelium discoideum slug cDNA, clone SSL692. 613 0.0 5
(C93814) Dictyostelium discoideum slug cDNA, clone SSL749. 557 0.0 4
(C83933) Dictyostelium discoideum slug cDNA, clone SSA680. 642 0.0 2
(AU266680) Dictyostelium discoideum vegetative cDNA clone:VS... 613 0.0 3
(AU074749) Dictyostelium discoideum slug cDNA, clone SSL749. 131 6e-26 1
(BX511257) Zebrafish DNA sequence from clone DKEY-280E21 in ... 48 0.65 1
(AC116429) Papio anubis clone RP41-1A14, WORKING DRAFT SEQUE... 48 0.65 1
(ER604571) 1093016267564 Global-Ocean-Sampling_GS-36-01-01-2... 48 0.65 1
(AC092407) Papio anubis clone RP41-402M16, WORKING DRAFT SEQ... 46 1.5 2
(AM458711) Vitis vinifera contig VV78X211217.5, whole genome... 42 2.3 3
(AC150792) Bos taurus clone CH240-397L15, WORKING DRAFT SEQU... 46 2.5 1
(AC150709) Bos taurus clone CH240-273I10, WORKING DRAFT SEQU... 46 2.5 1
(AC150525) Bos taurus clone CH240-100N17, WORKING DRAFT SEQU... 46 2.5 1
(CU856418) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 46 2.5 1
(CU468856) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 46 2.5 1
(EK314523) 1095462408795 Global-Ocean-Sampling_GS-31-01-01-1... 46 2.5 1
(BB504737) Mus musculus 0 day neonate kidney cDNA, RIKEN ful... 46 2.5 1
(AL596132) Human DNA sequence from clone RP11-30A1 on chromo... 40 4.0 2
(AC180403) Strongylocentrotus purpuratus clone R3-3111C02, W... 34 4.7 2
(AC178108) Strongylocentrotus purpuratus clone R3-3073F23, W... 34 4.8 2
(AC176713) Strongylocentrotus purpuratus clone R3-3095F8, WO... 34 4.8 2
(AC177172) Strongylocentrotus purpuratus clone R3-4015P06, W... 34 4.9 2
(ES383318) Qua_Testis_lD1-4_E08 Guppy pDNR_LIB Quare Testis ... 40 6.4 2
(U09810) Katharina tunicata mitochondrial genome, complete s... 44 8.4 2

>(C93740) Dictyostelium discoideum slug cDNA, clone SSL665.
Length = 730

Score = 406 bits (205), Expect(7) = 0.0
Identities = 211/213 (99%)
Strand = Plus / Plus


Query: 303 ccaattcccattcagtttagcatcctctataacttttggtatcaatagaggtggcaataa 362
||||||| ||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 79 ccaattcacattcagtttagcatcctctataacttatggtatcaatagaggtggcaataa 138


Query: 363 tgggagacggaggtacaaaatattgatctggacatacaaactcaaaaactgacaatactc 422
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 139 tgggagacggaggtacaaaatattgatctggacatacaaactcaaaaactgacaatactc 198


Query: 423 tttacacttgttattgccttcgtagttgtatcttttgcatatgcttgtattatgctttta 482
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 199 tttacacttgttattgccttcgtagttgtatcttttgcatatgcttgtattatgctttta 258


Query: 483 attacattagttgcattattcaaacgtgttcat 515
|||||||||||||||||||||||||||||||||
Sbjct: 259 attacattagttgcattattcaaacgtgttcat 291

Score = 315 bits (159), Expect(7) = 0.0
Identities = 162/163 (99%)
Strand = Plus / Plus


Query: 675 ctggtatctgtagtaaattcaaaggaagtgattccctcttttcttggggtccatccatcg 734
|||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 449 ctggtatctgtagtaaattcaagggaagtgattccctcttttcttggggtccatccatcg 508


Query: 735 gttggtattgctcacttgcagctgcaattgtctcatttattactattttcttgacttctt 794
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 509 gttggtattgctcacttgcagctgcaattgtctcatttattactattttcttgacttctt 568


Query: 795 ccatcttacacactcgtaaattcggatatcatgtcattcacta 837
|||||||||||||||||||||||||||||||||||||||||||
Sbjct: 569 ccatcttacacactcgtaaattcggatatcatgtcattcacta 611

Score = 190 bits (96), Expect(7) = 0.0
Identities = 96/96 (100%)
Strand = Plus / Plus


Query: 523 ggtagaaaaggcattatttgttatgtcaatcttgttatgtattttcaatgtactttcaac 582
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 299 ggtagaaaaggcattatttgttatgtcaatcttgttatgtattttcaatgtactttcaac 358


Query: 583 tttattattattaagattaaacaaagcactctgtga 618
||||||||||||||||||||||||||||||||||||
Sbjct: 359 tttattattattaagattaaacaaagcactctgtga 394

Score = 85.7 bits (43), Expect(7) = 0.0
Identities = 49/51 (96%)
Strand = Plus / Plus


Query: 231 tacaattctctttttaggagcagtcattggaactaaatggtctattcattc 281
||||| |||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 9 tacaaatctccttttaggagcagtcattggaactaaatggtctattcattc 59

Score = 52.0 bits (26), Expect(7) = 0.0
Identities = 26/26 (100%)
Strand = Plus / Plus


Query: 619 agatgccactgatggtctttcattac 644
||||||||||||||||||||||||||
Sbjct: 394 agatgccactgatggtctttcattac 419

Score = 36.2 bits (18), Expect(7) = 0.0
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 649 ttcaatggagaaaagtat 666
||||||||||||||||||
Sbjct: 423 ttcaatggagaaaagtat 440

Score = 36.2 bits (18), Expect(7) = 0.0
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 839 agactcttatgagagttt 856
||||||||||||||||||
Sbjct: 612 agactcttatgagagttt 629

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 835,708,440
Number of extensions: 53790923
Number of successful extensions: 4463664
Number of sequences better than 10.0: 25
Length of query: 983
Length of database: 101,790,757,118
Length adjustment: 24
Effective length of query: 959
Effective length of database: 99,340,224,878
Effective search space: 95267275658002
Effective search space used: 95267275658002
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7.30
Homology vs Protein
Query= Contig-U04448-1 (Contig-U04448-1Q) /CSM_Contig/Contig-U04448-1Q.Seq.d
(983 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

(Q54P08) RecName: Full=Putative uncharacterized transmembrane pr... 37 0.80

>(Q54P08) RecName: Full=Putative uncharacterized transmembrane
protein DDB_G0285049;
Length = 370

Score = 37.4 bits (85), Expect = 0.80
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 8/63 (12%)
Frame = +2

Query: 644 PFSMEKSILDSGICSKFKGSDSL--------FSWGPSIGWYCSLAAAIVSFITIFLTSSI 799
P K++ G C+ F G S FSWGPS GWY SL + + +I + +
Sbjct: 269 PLCYTKNLDPFGYCNSFIGFSSTTSDENFMDFSWGPSFGWYLSLCSLCLDSFSIIVIIFL 328

Query: 800 LHT 808
+ T
Sbjct: 329 IIT 331

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: 1,230,792,869
Number of extensions: 23469862
Number of successful extensions: 59878
Number of sequences better than 10.0: 1
Number of HSP's gapped: 59846
Number of HSP's successfully gapped: 1
Length of query: 327
Length of database: 1,061,185,681
Length adjustment: 129
Effective length of query: 198
Effective length of database: 639,555,889
Effective search space: 126632066022
Effective search space used: 126632066022
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: 0.98 gvh: 0.70 alm: 0.26 top: 0.27 tms: 0.07 mit: 0.32 mip: 0.06
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: 1.00 tyr: 0.42 leu: 0.00 gpi: 0.00 myr: 0.00
dna: 0.00 rib: 0.00 bac: 0.00 m1a: 1.00 m1b: 0.00 m2 : 0.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 0.00

32.0 %: extracellular, including cell wall
32.0 %: plasma membrane
20.0 %: endoplasmic reticulum
12.0 %: Golgi
4.0 %: mitochondrial

>> prediction for Contig-U04448-1 is exc

VS (DIR, S) 1
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 4
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