Contig-U01503-1
Contig ID Contig-U01503-1
Contig update 2001. 8.29
Contig sequence
>Contig-U01503-1 (Contig-U01503-1Q) /CSM_Contig/Contig-U01503-1Q.Seq.d
AATTTTAAAAAAATGAATGTTTTATAGGATTTATTATTTAAAAAAAAATT
ATTAAAATAAAATTTTAAAAATAATTTTAAAATTATAAAAATAGAATTTT
AATATTTAAAGAAAAAAAATTATTTTTTGATATTTTGTAAAAATATAAAA
AATA----------AAAGAAAAAAAATTATTTTTTGATATTTTGTAAAAA
TATAAAAAATAAAAAAAATAGTAAATCAAATAAAAATAAAAAAAAAAAAT
AAAAAAAAAAAAAATAAAAAAAAAAATTTAAAAAATAAAAAAATTAATTA
TTTATATATTTAAAACATGACAATATTAAAATCAATTGAAAATATAATGG
TAAATAGAAATTCAACAAACAAACTAATGAATAATTTTACAAATAATTCA
AATTATAATAATAATTCAAATGATTTTATTAATGGATATATTGATAATAA
TAAACCTTTACAAACAATACATGGAAATTCATTCGTAACAGCGATTATGT
CTCCAAATAAATGCCATTATCCACTTTTTAATAAATGTCCTGAAAAATTT
TAATTATTTAAAAAAAAAAAAAAAAATATCTATACAAAAAAATCATAATT
ATAATAACAATAATTATAAATAACAATAATAATATTTATGTAAAATTAAA
ATTAAAATTAAAATTGAAAAATAAATAATAAAAAAAAAAAAAAAAAAAAA

Gap gap included
Contig length 690
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 817903
End point 818511
Strand (PLUS/MINUS) PLUS
Number of clones 2
Number of EST 3
Link to clone list U01503
List of clone(s)

est1=SSA214F,1,155
est2=SSF241F,156,552
est3=SSA214Z,285,692
Translated Amino Acid sequence
nfkkmnvl*dllfkkkllk*nfknnfkiikief*YLKKKNYFLIFCKNIKN---

---KKKNYFLIFCKNIKNKKNSKSNKNKKKK*kkkk*kkkfkk*kn*lfiylkhdnikin
*kyngk*kfnkqtne*fyk*fkl***fk*fy*wiy****tftnntwkfirnsdyvsk*mp
lstf**ms*kilii*kkkkkylykkiiiiitiiinnnnniyvklklklklknk**kkkkk
k


Translated Amino Acid sequence (All Frames)
Frame A:
nfkkmnvl*dllfkkkllk*nfknnfkiikief*YLKKKNYFLIFCKNIKN---

---kekklffdil*kykk*kk**ik*k*kkkikkkkikkki*kikkliiyifkt*qy*nq
lki*w*ieiqqtn**iilqiiqiiiiiqmillmdiliiinlykqymeihs*qrlclqina
iihflinvlknfnylkkkkkisiqknhnynnnnyk*q**ylckikikikiek*iikkkkk
k

Frame B:
ilkk*mfyriyylkkny*nkilkiilkl*k*nfni*rkkiif*yfvki*ki---

---KKKNYFLIFCKNIKNKKNSKSNKNKKKK*kkkk*kkkfkk*kn*lfiylkhdnikin
*kyngk*kfnkqtne*fyk*fkl***fk*fy*wiy****tftnntwkfirnsdyvsk*mp
lstf**ms*kilii*kkkkkylykkiiiiitiiinnnnniyvklklklklknk**kkkkk
k

Frame C:
f*knecfigfii*kkiikikf*k*f*nyknrilifkekklffdil*kykk---

---rkkiif*yfvki*kikkivnqikikkknkkkknkkknlknkkinylyi*nmtilksi
enimvnrnstnklmnnftnnsnynnnsndfingyidnnkplqtihgnsfvtaimspnkch
yplfnkcpekf*lfkkkkkniytkks*l**q*l*itiiifm*n*n*n*n*kinnkkkkkk
k

own update 2004. 6. 7
Homology vs CSM-cDNA
Query= Contig-U01503-1 (Contig-U01503-1Q)
/CSM_Contig/Contig-U01503-1Q.Seq.d
(700 letters)

Database: CSM
8361 sequences; 7,895,291 total letters


Score E
Sequences producing significant alignments: (bits) Value

Contig-U01503-1 (Contig-U01503-1Q) /CSM_Contig/Conti... 527 e-150
Contig-U12891-1 (Contig-U12891-1Q) /CSM_Contig/Conti... 44 3e-04
Contig-U11268-1 (Contig-U11268-1Q) /CSM_Contig/Conti... 44 3e-04
Contig-U06521-1 (Contig-U06521-1Q) /CSM_Contig/Conti... 42 0.001
Contig-U14691-1 (Contig-U14691-1Q) /CSM_Contig/Conti... 40 0.004
Contig-U11687-1 (Contig-U11687-1Q) /CSM_Contig/Conti... 40 0.004
Contig-U10737-1 (Contig-U10737-1Q) /CSM_Contig/Conti... 40 0.004
Contig-U09165-1 (Contig-U09165-1Q) /CSM_Contig/Conti... 40 0.004
Contig-U06742-1 (Contig-U06742-1Q) /CSM_Contig/Conti... 40 0.004
Contig-U03847-1 (Contig-U03847-1Q) /CSM_Contig/Conti... 40 0.004

>Contig-U01503-1 (Contig-U01503-1Q) /CSM_Contig/Contig-U01503-1Q.Seq.d
Length = 700

Score = 527 bits (266), Expect = e-150
Identities = 266/266 (100%)
Strand = Plus / Plus


Query: 294 ttaattatttatatatttaaaacatgacaatattaaaatcaattgaaaatataatggtaa 353
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 294 ttaattatttatatatttaaaacatgacaatattaaaatcaattgaaaatataatggtaa 353


Query: 354 atagaaattcaacaaacaaactaatgaataattttacaaataattcaaattataataata 413
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 354 atagaaattcaacaaacaaactaatgaataattttacaaataattcaaattataataata 413


Query: 414 attcaaatgattttattaatggatatattgataataataaacctttacaaacaatacatg 473
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 414 attcaaatgattttattaatggatatattgataataataaacctttacaaacaatacatg 473


Query: 474 gaaattcattcgtaacagcgattatgtctccaaataaatgccattatccactttttaata 533
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 474 gaaattcattcgtaacagcgattatgtctccaaataaatgccattatccactttttaata 533


Query: 534 aatgtcctgaaaaattttaattattt 559
||||||||||||||||||||||||||
Sbjct: 534 aatgtcctgaaaaattttaattattt 559


Score = 63.9 bits (32), Expect = 3e-10
Identities = 32/32 (100%)
Strand = Plus / Plus


Query: 1 aattttaaaaaaatgaatgttttataggattt 32
||||||||||||||||||||||||||||||||
Sbjct: 1 aattttaaaaaaatgaatgttttataggattt 32


>Contig-U12891-1 (Contig-U12891-1Q) /CSM_Contig/Contig-U12891-1Q.Seq.d
Length = 540

Score = 44.1 bits (22), Expect = 3e-04
Identities = 28/30 (93%)
Strand = Plus / Plus


Query: 392 aataattcaaattataataataattcaaat 421
|||||||||||| ||||||||||| |||||
Sbjct: 108 aataattcaaataataataataatccaaat 137


>Contig-U11268-1 (Contig-U11268-1Q) /CSM_Contig/Contig-U11268-1Q.Seq.d
Length = 4224

Score = 44.1 bits (22), Expect = 3e-04
Identities = 25/26 (96%)
Strand = Plus / Plus


Query: 390 caaataattcaaattataataataat 415
|||||||||||||| |||||||||||
Sbjct: 1145 caaataattcaaataataataataat 1170


Database: CSM
Posted date: Jun 7, 2004 8:33 AM
Number of letters in database: 7,895,291
Number of sequences in database: 8361

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: 32,388
Number of Sequences: 8361
Number of extensions: 32388
Number of successful extensions: 3132
Number of sequences better than 10.0: 526
length of query: 700
length of database: 7,895,291
effective HSP length: 16
effective length of query: 684
effective length of database: 7,761,515
effective search space: 5308876260
effective search space used: 5308876260
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. 4.29
Homology vs DNA
Query= Contig-U01503-1 (Contig-U01503-1Q) /CSM_Contig/Contig-U01503-1Q.Seq.d
(700 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

(C25584) Dictyostelium discoideum slug cDNA, clone SSA214. 200 5e-47 1
(AC187165) Glycine max clone gmw2-91b16, complete sequence. 46 1.8 1
(DU870269) 107933 Tomato HindIII BAC Library Solanum lycoper... 46 1.8 1
(AL121575) Human DNA sequence from clone RP5-914N13 on chrom... 44 7.1 1
(AC021167) Homo sapiens chromosome 6 clone RP11-623A23, WORK... 44 7.1 1
(CB177918) is22f07.x1 HR85 islet Homo sapiens cDNA clone IMA... 44 7.1 1

>(C25584) Dictyostelium discoideum slug cDNA, clone SSA214.
Length = 407

Score = 200 bits (101), Expect = 5e-47
Identities = 104/105 (99%)
Strand = Plus / Plus


Query: 455 cctttacaaacaatacatggaaattcattcgtaacagcgattatgtctccaaataaatgc 514
||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 161 cctttacaaacaatacatggaaattcattcgtaacagggattatgtctccaaataaatgc 220


Query: 515 cattatccactttttaataaatgtcctgaaaaattttaattattt 559
|||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 221 cattatccactttttaataaatgtcctgaaaaattttaattattt 265

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 167,164,120
Number of extensions: 11202059
Number of successful extensions: 919561
Number of sequences better than 10.0: 6
Length of query: 700
Length of database: 101,790,757,118
Length adjustment: 24
Effective length of query: 676
Effective length of database: 99,340,224,878
Effective search space: 67153992017528
Effective search space used: 67153992017528
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7.16
Homology vs Protein
Query= Contig-U01503-1 (Contig-U01503-1Q) /CSM_Contig/Contig-U01503-1Q.Seq.d
(700 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

(Q55G84) RecName: Full=Uncharacterized protein DDB_G0267772; 108 2e-22

>(Q55G84) RecName: Full=Uncharacterized protein DDB_G0267772;
Length = 78

Score = 108 bits (269), Expect = 2e-22
Identities = 54/72 (75%), Positives = 54/72 (75%)
Frame = +2

Query: 317 MTILKSIENIMVNRNSTNKLMXXXXXXXXXXXXXXXXXXGYIDNNKPLQTIHGNSFVTAI 496
MTILKSIENIMVNRNSTNKLM GYIDNNKPLQTIHGNSFVTAI
Sbjct: 1 MTILKSIENIMVNRNSTNKLMNNFTNNSNYNNNSNDFINGYIDNNKPLQTIHGNSFVTAI 60

Query: 497 MSPNKCHYPLFN 532
MSPNKCHYPLFN
Sbjct: 61 MSPNKCHYPLFN 72

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: 368,738,023
Number of extensions: 3321301
Number of successful extensions: 5976
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5974
Number of HSP's successfully gapped: 1
Length of query: 233
Length of database: 1,051,180,864
Length adjustment: 124
Effective length of query: 109
Effective length of database: 649,847,548
Effective search space: 70833382732
Effective search space used: 70833382732
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: 0.77 gvh: 0.08 alm: 0.62 top: 0.53 tms: 0.00 mit: 0.37 mip: 0.00
nuc: 0.68 erl: 0.00 erm: 0.60 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

72.0 %: nuclear
24.0 %: cytoplasmic
4.0 %: mitochondrial

>> prediction for Contig-U01503-1 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) 2
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