Contig-U09422-1
Contig ID Contig-U09422-1
Contig update 2002. 9.13
Contig sequence
>Contig-U09422-1 (Contig-U09422-1Q) /CSM_Contig/Contig-U09422-1Q.Seq.d
ATAACTATTAATTAAATAAACATATATATTATATATATAATAAATAAAAA
AATAAAAAACAAAATAAAATGAAAATTATTTATTCATTAATTTCAATAAT
TTTAATAATTTCAATTTGTAATGCAATTAAAATGAAAAATTCAAATAATG
ATGCAAAATCATTATGGATTAATTTCCTTCCATATGATGAAAATTGTGAA
AAACCAGTTCCAGGTATGGGATTTGGTTCATTAGGAGCTGGACCTTGTTC
ACTCAATTATACTGCTGAAACATCAGGAAGTCAATGGACATTTTTCGTTG
ATG----------TGTTCCAGGTCCAACCAAAGTATTTAAAGTTGGTCAA
TGTGCACAATATGATAATTTACAAAATACCAATTATATGGTAACAGTAAC
AAAAGAACCACAAATTCCAAATGGAGTTTATTTAATTTATAATAAGGATG
AATTTTGTCTAGCTTATCAAAATTATTGGTTTTATACCCCAGGAACTGAA
ATTAATAACTTTGATGGTAATCAAACTATGACTTTTTCTTGCAAACATGG
TGTTGCTTATACAACTCAATGTGTTACTGAATCAAATTGTTTAACATTAA
AGAGCTCAACAACTTGTGGTTTTTTAACTGGATATTATGCTGATATTTAT
TGCACTTAAAAAAATAA

Gap gap included
Contig length 657
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 407130
End point 407788
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 2
Link to clone list U09422
List of clone(s)

est1=SSH681F,1,304
est2=SSH681Z,305,659
Translated Amino Acid sequence
ny*lnkhiyyiynk*KNKKQNKMKIIYSLISIILIISICNAIKMKNSNNDAKSLWINFLP
YDENCEKPVPGMGFGSLGAGPCSLNYTAETSGSQWTFFVD---

---VPGPTKVFKVGQCAQYDNLQNTNYMVTVTKEPQIPNGVYLIYNKDEFCLAYQNYWFY
TPGTEINNFDGNQTMTFSCKHGVAYTTQCVTESNCLTLKSSTTCGFLTGYYADIYCT*kn


Translated Amino Acid sequence (All Frames)
Frame A:
itin*iniyiiyiinkkiknkik*klfih*fq*f**fqfvmqlk*kiqimmqnhyglisf
hmmkivknqfqvwdlvh*eldlvhsiillkhqevnghfslm---

---csrsnqsi*swsmcti**ftkyqlygnsnkrttnskwslfnl**g*ilsslskllvl
yprn*n**l*w*snydfflqtwcclynsmcy*iklfnikelnnlwffnwilc*yllhlkk
*

Frame B:
*llik*tyilyi**ikk*ktk*nenylfinfnnfnnfnl*cn*nekfk**ckiimd*fps
i**kl*ktssrygiwfirswtlftqlyc*nirksmdifr*---

---VPGPTKVFKVGQCAQYDNLQNTNYMVTVTKEPQIPNGVYLIYNKDEFCLAYQNYWFY
TPGTEINNFDGNQTMTFSCKHGVAYTTQCVTESNCLTLKSSTTCGFLTGYYADIYCT*kn

Frame C:
ny*lnkhiyyiynk*KNKKQNKMKIIYSLISIILIISICNAIKMKNSNNDAKSLWINFLP
YDENCEKPVPGMGFGSLGAGPCSLNYTAETSGSQWTFFVD---

---fqvqpkylklvnvhnmiiykipiiw*q*qknhkfqmefi*fiirmnfv*likiigfi
pqelklitlmvikl*lflanmvlliqlnvllnqiv*h*raqqlvvf*ldimlifialkki

own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U09422-1 (Contig-U09422-1Q)
/CSM_Contig/Contig-U09422-1Q.Seq.d
(667 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U09422-1 (Contig-U09422-1Q) /CSM_Contig/Conti... 928 0.0
Contig-U09946-1 (Contig-U09946-1Q) /CSM_Contig/Conti... 38 0.012
Contig-U03732-1 (Contig-U03732-1Q) /CSM_Contig/Conti... 36 0.047
Contig-U14079-1 (Contig-U14079-1Q) /CSM_Contig/Conti... 34 0.18
Contig-U12032-1 (Contig-U12032-1Q) /CSM_Contig/Conti... 34 0.18
Contig-U11902-1 (Contig-U11902-1Q) /CSM_Contig/Conti... 34 0.18
Contig-U11309-1 (Contig-U11309-1Q) /CSM_Contig/Conti... 34 0.18
Contig-U09580-1 (Contig-U09580-1Q) /CSM_Contig/Conti... 34 0.18
Contig-U14003-1 (Contig-U14003-1Q) /CSM_Contig/Conti... 32 0.73
Contig-U13893-1 (Contig-U13893-1Q) /CSM_Contig/Conti... 32 0.73

>Contig-U09422-1 (Contig-U09422-1Q) /CSM_Contig/Contig-U09422-1Q.Seq.d
Length = 667

Score = 928 bits (468), Expect = 0.0
Identities = 498/498 (100%)
Strand = Plus / Plus


Query: 160 cattatggattaatttccttccatatgatgaaaattgtgaaaaaccagttccaggtatgg 219
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 160 cattatggattaatttccttccatatgatgaaaattgtgaaaaaccagttccaggtatgg 219


Query: 220 gatttggttcattaggagctggaccttgttcactcaattatactgctgaaacatcaggaa 279
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 220 gatttggttcattaggagctggaccttgttcactcaattatactgctgaaacatcaggaa 279


Query: 280 gtcaatggacatttttcgttgatgnnnnnnnnnntgttccaggtccaaccaaagtattta 339
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 280 gtcaatggacatttttcgttgatgnnnnnnnnnntgttccaggtccaaccaaagtattta 339


Query: 340 aagttggtcaatgtgcacaatatgataatttacaaaataccaattatatggtaacagtaa 399
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 340 aagttggtcaatgtgcacaatatgataatttacaaaataccaattatatggtaacagtaa 399


Query: 400 caaaagaaccacaaattccaaatggagtttatttaatttataataaggatgaattttgtc 459
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 400 caaaagaaccacaaattccaaatggagtttatttaatttataataaggatgaattttgtc 459


Query: 460 tagcttatcaaaattattggttttataccccaggaactgaaattaataactttgatggta 519
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 460 tagcttatcaaaattattggttttataccccaggaactgaaattaataactttgatggta 519


Query: 520 atcaaactatgactttttcttgcaaacatggtgttgcttatacaactcaatgtgttactg 579
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 520 atcaaactatgactttttcttgcaaacatggtgttgcttatacaactcaatgtgttactg 579


Query: 580 aatcaaattgtttaacattaaagagctcaacaacttgtggttttttaactggatattatg 639
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 580 aatcaaattgtttaacattaaagagctcaacaacttgtggttttttaactggatattatg 639


Query: 640 ctgatatttattgcactt 657
||||||||||||||||||
Sbjct: 640 ctgatatttattgcactt 657


>Contig-U09946-1 (Contig-U09946-1Q) /CSM_Contig/Contig-U09946-1Q.Seq.d
Length = 1243

Score = 38.2 bits (19), Expect = 0.012
Identities = 19/19 (100%)
Strand = Plus / Minus


Query: 427 tttatttaatttataataa 445
|||||||||||||||||||
Sbjct: 1223 tttatttaatttataataa 1205


>Contig-U03732-1 (Contig-U03732-1Q) /CSM_Contig/Contig-U03732-1Q.Seq.d
Length = 829

Score = 36.2 bits (18), Expect = 0.047
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 428 ttatttaatttataataa 445
||||||||||||||||||
Sbjct: 92 ttatttaatttataataa 109


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: 6567
Number of Sequences: 6905
Number of extensions: 6567
Number of successful extensions: 711
Number of sequences better than 10.0: 74
length of query: 667
length of database: 5,674,871
effective HSP length: 16
effective length of query: 651
effective length of database: 5,564,391
effective search space: 3622418541
effective search space used: 3622418541
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 2008.11.16
Homology vs DNA
Query= Contig-U09422-1 (Contig-U09422-1Q) /CSM_Contig/Contig-U09422-1Q.Seq.d
(667 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

(AU038414) Dictyostelium discoideum slug cDNA, clone SSH681. 682 0.0 1
(AU073617) Dictyostelium discoideum slug cDNA, clone SSH681. 161 4e-35 1
(AC200204) Zea mays chromosome 10 clone CH201-265A9; ZMMBBc0... 44 0.56 4
(CU927922) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 36 1.1 5
(AC176363) Strongylocentrotus purpuratus clone R3-3048E21, W... 46 1.7 1
(EI955302) SB_BBc67-O11.R SB_BBc Sorghum bicolor genomic 3',... 46 1.7 1
(CW236615) 104_692_11215711_148_37500_022 Sorghum methylatio... 46 1.7 1
(CW156919) 104_560_11146948_116_36382_014 Sorghum methylatio... 46 1.7 1
(CW084702) 104_427_10945952_116_32512_022 Sorghum methylatio... 46 1.7 1
(CW084701) 104_427_10945952_114_32508_022 Sorghum methylatio... 46 1.7 1
(CW032774) 104_262_10501583_114_30361 Sorghum methylation fi... 46 1.7 1
(CL186750) 104_401_10900412_114_32409_068 Sorghum methylatio... 46 1.7 1
(A63279) Sequence 19 from Patent WO9723619. 40 2.3 2
(AC092013) Homo sapiens BAC clone RP11-695L4 from 7, complet... 36 4.2 3
(CR450735) Zebrafish DNA sequence from clone CH211-274B17 in... 44 6.6 1
(CR376772) Zebrafish DNA sequence from clone CH211-244C20 in... 44 6.6 1
(AX458554) Sequence 100 from Patent WO0246454. 44 6.6 1
(AL929354) Plasmodium falciparum strain 3D7, chromosome 5, s... 44 6.6 1
(AC098931) Homo sapiens chromosome 3 clone RP11-353I6, compl... 44 6.6 1
(CU928370) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 6.6 1
(CU915486) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 6.6 1
(AC226343) Zea mays chromosome 5 clone CH201-189P20; ZMMBBc0... 44 6.6 1
(AC213537) Zea mays chromosome 5 clone ZMMBBb-594L20; ZMMBBb... 44 6.6 1
(AC210009) Zea mays chromosome 5 clone CH201-479B12; ZMMBBc0... 44 6.6 1
(AC209461) Zea mays chromosome 9 clone CH201-272J8; ZMMBBc02... 44 6.6 1
(AC207120) Zea mays chromosome 5 clone CH201-404E6; ZMMBBc04... 44 6.6 1
(AC204992) Zea mays chromosome 9 clone ZMMBBb-610M4; ZMMBBb0... 44 6.6 1
(CZ330154) ZMMBF0037K14f ZMMBF Zea mays genomic clone ZMMBF0... 44 6.6 1
(CZ153738) OA_BBa0067C05.f OA_BBa Oryza alta genomic clone O... 44 6.6 1
(CT141468) Sus scrofa genomic clone CH242-108J16, genomic su... 44 6.6 1
(CG817374) SOYDE59TV LargeInsertSoybeanGenLib Glycine max ge... 44 6.6 1
(DT492510) WS02550.C21_O23 PT-MB-N-A-15 Populus trichocarpa ... 44 6.6 1
(FG763616) G1146P339FM18.T0 Anolis carolinensis pooled norma... 44 6.6 1
(FG676150) G1143P325FB17.T0 Anolis carolinensis pooled norma... 44 6.6 1
(FD940199) RS1GM66TF RS1(AR) Raphanus sativus var. oleiformi... 44 6.6 1
(AM285305) Spiroplasma citri GII3-3X chromosome, contig Cont... 34 7.7 5
(CU856637) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 30 8.9 7

>(AU038414) Dictyostelium discoideum slug cDNA, clone SSH681.
Length = 355

Score = 682 bits (344), Expect = 0.0
Identities = 344/344 (100%)
Strand = Plus / Plus


Query: 314 tgttccaggtccaaccaaagtatttaaagttggtcaatgtgcacaatatgataatttaca 373
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 tgttccaggtccaaccaaagtatttaaagttggtcaatgtgcacaatatgataatttaca 60


Query: 374 aaataccaattatatggtaacagtaacaaaagaaccacaaattccaaatggagtttattt 433
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 aaataccaattatatggtaacagtaacaaaagaaccacaaattccaaatggagtttattt 120


Query: 434 aatttataataaggatgaattttgtctagcttatcaaaattattggttttataccccagg 493
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 aatttataataaggatgaattttgtctagcttatcaaaattattggttttataccccagg 180


Query: 494 aactgaaattaataactttgatggtaatcaaactatgactttttcttgcaaacatggtgt 553
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 aactgaaattaataactttgatggtaatcaaactatgactttttcttgcaaacatggtgt 240


Query: 554 tgcttatacaactcaatgtgttactgaatcaaattgtttaacattaaagagctcaacaac 613
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 tgcttatacaactcaatgtgttactgaatcaaattgtttaacattaaagagctcaacaac 300


Query: 614 ttgtggttttttaactggatattatgctgatatttattgcactt 657
||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 ttgtggttttttaactggatattatgctgatatttattgcactt 344

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 619,708,328
Number of extensions: 36063386
Number of successful extensions: 2995286
Number of sequences better than 10.0: 37
Length of query: 667
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 643
Effective length of database: 97,308,875,965
Effective search space: 62569607245495
Effective search space used: 62569607245495
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 6.25
Homology vs Protein
Query= Contig-U09422-1 (Contig-U09422-1Q) /CSM_Contig/Contig-U09422-1Q.Seq.d
(667 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

BA000045_3269(BA000045|pid:none) Gloeobacter violaceus PCC 7421 ... 34 4.4
CP000360_957(CP000360|pid:none) Acidobacteria bacterium Ellin345... 34 4.4
CP000685_3088(CP000685|pid:none) Flavobacterium johnsoniae UW101... 33 7.5

>BA000045_3269(BA000045|pid:none) Gloeobacter violaceus PCC 7421
DNA, complete genome.
Length = 651

Score = 33.9 bits (76), Expect = 4.4
Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Frame = +3

Query: 150 DAKSLWIN-----FLPYDENCEKPVPGMGFGSLGAGPCSLNYTAETSGSQWT 290
D K++W +L D+N VPG G SLGAG SL+ G Q+T
Sbjct: 491 DGKAIWTEGASPYWLGGDQNAGSVVPGYGTRSLGAGSHSLSAKMTVKGVQYT 542

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: 912,686,200
Number of extensions: 17409605
Number of successful extensions: 36418
Number of sequences better than 10.0: 3
Number of HSP's gapped: 36413
Number of HSP's successfully gapped: 3
Length of query: 222
Length of database: 1,040,966,779
Length adjustment: 124
Effective length of query: 98
Effective length of database: 643,635,439
Effective search space: 63076273022
Effective search space used: 63076273022
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: 0.98 gvh: 0.64 alm: 0.23 top: 0.27 tms: 0.07 mit: 0.31 mip: 0.00
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: 0.00 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 : 1.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 0.00

28.0 %: endoplasmic reticulum
20.0 %: cytoplasmic
16.0 %: nuclear
12.0 %: Golgi
12.0 %: mitochondrial
4.0 %: extracellular, including cell wall
4.0 %: plasma membrane
4.0 %: vesicles of secretory system

>> prediction for Contig-U09422-1 is end

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