Contig-U12787-1
Contig ID Contig-U12787-1
Contig update 2002.12.18
Contig sequence
>Contig-U12787-1 (Contig-U12787-1Q) /CSM_Contig/Contig-U12787-1Q.Seq.d
ATNAAATTCCTATAAAAGAGATCTTATTGTTATTTTAAATTGTGATGAAA
ACCAACATTATCAATTAGTTTCAACTTTAGAATCTCCAACATGTGTATAT
ACAATAACAATTAAAACTAAATATGTATGTGAATCAACAATTTATTACAA
TAGAATTAACTATACCTATTATGATATTACTCCAATAAAAACAACAAAAG
ATAGTCCAAAAACTGTAGATATTGTTGTTGGTGGATATCCATATAAACTT
TATTACGGTATAGGTAATACTGTTAATTATTGCTCAAATCAAGTGGAGTC
AGTTCCAGGTGTTGATTATCAAGCTTGCCAATATCTCAGCGGTCTTGTTA
TTCAAGTCGGTAGTTTAAAAAATACATCAATGTATATAAGTAATAATGGT
ATAAGTATATATCATACCACACCATTTGATTTAACCAGAGTATGCCAAAA
TACAAGATATCAAAGAGTGATACAACAGCAATTAACGTTGTGGTCAGCGC
TACGGAGACTGCCAATTATTGGGCATGTGAATATACAATCGAAATTAAAA
CCAAATATGCATGTCCAATTAATTATGCACCAGTATTACCAGTTGTTGGA
AATCCATGTTTATACACTTGCACANNNNNNNNN

Gap no gap
Contig length 633
Chromosome number (1..6, M) -
Chromosome length -
Start point -
End point -
Strand (PLUS/MINUS) -
Number of clones 1
Number of EST 1
Link to clone list U12787
List of clone(s)

est1=AHN605F,1,624
Translated Amino Acid sequence
XNSYKRDLIVILNCDENQHYQLVSTLESPTCVYTITIKTKYVCESTIYYNRINYTYYDIT
PIKTTKDSPKTVDIVVGGYPYKLYYGIGNTVNYCSNQVESVPGVDYQACQYLSGLVIQVG
SLKNTSMYISNNGISIYHTTPFDLTRVCQNTRYQRVIQQQLTLWSALRRLPIIGHVNIQS
KLKPNMHVQLIMHQYYQLLEIHVYTLAXXX


Translated Amino Acid sequence (All Frames)
Frame A:
xkfl*krsycyfkl**kptlsisfnfrisnmciynnn*n*icm*innllq*n*lyll*yy
snknnkr*skncryccwwisi*tllryr*yc*lllkssgvssrc*lsslpisqrscyssr
*fkkyinvyk**wykyisyhti*fnqsmpkykisksdttainvvvsatetanywaceyti
eiktkyacpinyapvlpvvgnpclytctxxx


Frame B:
XNSYKRDLIVILNCDENQHYQLVSTLESPTCVYTITIKTKYVCESTIYYNRINYTYYDIT
PIKTTKDSPKTVDIVVGGYPYKLYYGIGNTVNYCSNQVESVPGVDYQACQYLSGLVIQVG
SLKNTSMYISNNGISIYHTTPFDLTRVCQNTRYQRVIQQQLTLWSALRRLPIIGHVNIQS
KLKPNMHVQLIMHQYYQLLEIHVYTLAXXX


Frame C:
xipikeilllf*ivmktniin*fql*nlqhvyiq*qlklnmyvnqqfitieltipimill
q*kqqkivqkl*illlvdihinfitv*villiiaqikwsqfqvliiklanisavllfksv
v*kihqci*vimv*vyiiphhli*peyakiqdike*ynsn*rcgqrygdcqllgm*iynr
n*nqicmsn*lctsitscwksmfihlhxxx


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U12787-1 (Contig-U12787-1Q)
/CSM_Contig/Contig-U12787-1Q.Seq.d
(633 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U12787-1 (Contig-U12787-1Q) /CSM_Contig/Conti... 1231 0.0
Contig-U10504-1 (Contig-U10504-1Q) /CSM_Contig/Conti... 86 5e-17
Contig-U03678-1 (Contig-U03678-1Q) /CSM_Contig/Conti... 38 0.011
Contig-U12805-1 (Contig-U12805-1Q) /CSM_Contig/Conti... 36 0.044
Contig-U08610-1 (Contig-U08610-1Q) /CSM_Contig/Conti... 36 0.044
Contig-U13647-1 (Contig-U13647-1Q) /CSM_Contig/Conti... 34 0.17
Contig-U12627-1 (Contig-U12627-1Q) /CSM_Contig/Conti... 34 0.17
Contig-U12521-1 (Contig-U12521-1Q) /CSM_Contig/Conti... 34 0.17
Contig-U11111-1 (Contig-U11111-1Q) /CSM_Contig/Conti... 34 0.17
Contig-U13894-1 (Contig-U13894-1Q) /CSM_Contig/Conti... 32 0.69

>Contig-U12787-1 (Contig-U12787-1Q) /CSM_Contig/Contig-U12787-1Q.Seq.d
Length = 633

Score = 1231 bits (621), Expect = 0.0
Identities = 621/621 (100%)
Strand = Plus / Plus


Query: 4 aaattcctataaaagagatcttattgttattttaaattgtgatgaaaaccaacattatca 63
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4 aaattcctataaaagagatcttattgttattttaaattgtgatgaaaaccaacattatca 63


Query: 64 attagtttcaactttagaatctccaacatgtgtatatacaataacaattaaaactaaata 123
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 64 attagtttcaactttagaatctccaacatgtgtatatacaataacaattaaaactaaata 123


Query: 124 tgtatgtgaatcaacaatttattacaatagaattaactatacctattatgatattactcc 183
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 124 tgtatgtgaatcaacaatttattacaatagaattaactatacctattatgatattactcc 183


Query: 184 aataaaaacaacaaaagatagtccaaaaactgtagatattgttgttggtggatatccata 243
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 184 aataaaaacaacaaaagatagtccaaaaactgtagatattgttgttggtggatatccata 243


Query: 244 taaactttattacggtataggtaatactgttaattattgctcaaatcaagtggagtcagt 303
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 244 taaactttattacggtataggtaatactgttaattattgctcaaatcaagtggagtcagt 303


Query: 304 tccaggtgttgattatcaagcttgccaatatctcagcggtcttgttattcaagtcggtag 363
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 304 tccaggtgttgattatcaagcttgccaatatctcagcggtcttgttattcaagtcggtag 363


Query: 364 tttaaaaaatacatcaatgtatataagtaataatggtataagtatatatcataccacacc 423
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 364 tttaaaaaatacatcaatgtatataagtaataatggtataagtatatatcataccacacc 423


Query: 424 atttgatttaaccagagtatgccaaaatacaagatatcaaagagtgatacaacagcaatt 483
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 424 atttgatttaaccagagtatgccaaaatacaagatatcaaagagtgatacaacagcaatt 483


Query: 484 aacgttgtggtcagcgctacggagactgccaattattgggcatgtgaatatacaatcgaa 543
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 484 aacgttgtggtcagcgctacggagactgccaattattgggcatgtgaatatacaatcgaa 543


Query: 544 attaaaaccaaatatgcatgtccaattaattatgcaccagtattaccagttgttggaaat 603
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 544 attaaaaccaaatatgcatgtccaattaattatgcaccagtattaccagttgttggaaat 603


Query: 604 ccatgtttatacacttgcaca 624
|||||||||||||||||||||
Sbjct: 604 ccatgtttatacacttgcaca 624


>Contig-U10504-1 (Contig-U10504-1Q) /CSM_Contig/Contig-U10504-1Q.Seq.d
Length = 1261

Score = 85.7 bits (43), Expect = 5e-17
Identities = 55/59 (93%)
Strand = Plus / Plus


Query: 323 gcttgccaatatctcagcggtcttgttattcaagtcggtagtttaaaaaatacatcaat 381
||||| ||||||||| | |||||||||||||||||| ||||||||||||||||||||||
Sbjct: 1179 gcttgtcaatatctctgtggtcttgttattcaagtctgtagtttaaaaaatacatcaat 1237


>Contig-U03678-1 (Contig-U03678-1Q) /CSM_Contig/Contig-U03678-1Q.Seq.d
Length = 1109

Score = 38.2 bits (19), Expect = 0.011
Identities = 22/23 (95%)
Strand = Plus / Minus


Query: 102 caataacaattaaaactaaatat 124
||||||||||||||| |||||||
Sbjct: 956 caataacaattaaaaataaatat 934


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: 9471
Number of Sequences: 6905
Number of extensions: 9471
Number of successful extensions: 988
Number of sequences better than 10.0: 90
length of query: 633
length of database: 5,674,871
effective HSP length: 16
effective length of query: 617
effective length of database: 5,564,391
effective search space: 3433229247
effective search space used: 3433229247
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 2008.12. 3
Homology vs DNA
Query= Contig-U12787-1 (Contig-U12787-1Q) /CSM_Contig/Contig-U12787-1Q.Seq.d
(633 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

(BJ337618) Dictyostelium discoideum cDNA clone:dda58i02, 5' ... 1231 0.0 1
(BJ435322) Dictyostelium discoideum cDNA clone:ddv26d19, 3' ... 86 2e-12 1
(AC116984) Dictyostelium discoideum chromosome 2 map 2567470... 34 0.40 14
(AC154249) Mus musculus BAC clone RP24-188L2 from chromosome... 46 1.5 1
(AE014847) Plasmodium falciparum 3D7 chromosome 12, section ... 46 1.5 1
(AC092624) Homo sapiens BAC clone RP11-261J9 from 2, complet... 46 1.5 1
(AC123455) Rattus norvegicus clone CH230-76E14, WORKING DRAF... 46 1.5 1
(AC112356) Rattus norvegicus clone CH230-41P21, *** SEQUENCI... 46 1.5 1
(AC108617) Rattus norvegicus clone CH230-294J22, *** SEQUENC... 46 1.5 1
(CU468843) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 46 1.5 1
(AC006280) Plasmodium falciparum chromosome 12 clone 3D7, **... 46 1.5 1
(AC004709) Plasmodium falciparum chromosome 12, *** SEQUENCI... 46 1.5 1
(BZ198423) CH230-494P7.TVB CHORI-230 Segment 2 Rattus norveg... 46 1.5 1
(EC287187) BRAINF089632O13 POSSUM_01-POSSUM-C-BRAIN-2KB Tric... 46 1.5 1
(CK427170) rl72e04.y1 Meloidogyne javanica J2 SL1 pGEM Meloi... 46 1.5 1
(CK403381) AUF_IfHdk_242_c02 Ictalurus furcatus head kidney ... 46 1.5 1
(BI936281) PfESToaa28d12.y1 Plasmodium falciparum 3D7 asexua... 46 1.5 1
(AC165872) Bos taurus clone CH240-176C21, WORKING DRAFT SEQU... 32 1.5 6
(AP002454) Homo sapiens genomic DNA, chromosome 18q21 clone:... 36 2.0 4
(FF673152) G826P5400FG11.T0 Acorn worm normalized juvenile p... 38 2.4 2
(BV306583) S236P6320FF4.T0 AlaskanMalamute Canis familiaris ... 34 2.5 2
(AC116986) Dictyostelium discoideum chromosome 2 map 2234041... 32 2.8 8
(AL513533) Human DNA sequence from clone RP11-341B24 on chro... 34 3.0 2
(CU611035) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 36 3.3 3
(EK425466) 1095516014703 Global-Ocean-Sampling_GS-31-01-01-1... 34 3.4 2
(EK425458) 1095516014692 Global-Ocean-Sampling_GS-31-01-01-1... 34 3.6 2
(BX323558) Zebrafish DNA sequence from clone CH211-214J24 in... 40 5.0 3
(CS468864) Sequence 55 from Patent EP1748080. 34 5.4 5
(CS419341) Sequence 55 from Patent WO2006094836. 34 5.4 5
(CT573309) Zebrafish DNA sequence from clone DKEY-153P6 in l... 44 6.0 1
(AC189207) Brassica rapa subsp. pekinensis clone KBrB007I19,... 44 6.0 1
(DD010735) Diagnosis of known genetic Parameters within the ... 44 6.0 1
(AX344558) Sequence 9 from Patent WO0200932. 44 6.0 1
(AC207847) Nomascus leucogenys leucogenys clone CH271-311O3,... 44 6.0 1
(AC196385) Zea mays chromosome 7 clone CH201-458I12; ZMMBBc0... 44 6.0 1
(ER849812) PPTIB67TF Solanum tuberosum RHPOTKEY BAC ends Sol... 44 6.0 1
(ER359406) 1092392800685 Global-Ocean-Sampling_GS-34-01-01-1... 44 6.0 1
(EK420423) 1095515502728 Global-Ocean-Sampling_GS-31-01-01-1... 44 6.0 1
(EJ015258) 1095433015330 Global-Ocean-Sampling_GS-26-01-01-1... 44 6.0 1
(EI983629) SB_BBc198-K03.R SB_BBc Sorghum bicolor genomic 3'... 44 6.0 1
(CW323621) 104_817_11476728_116_35958_082 Sorghum methylatio... 44 6.0 1
(CW224887) 104_662_11204061_116_37203_091 Sorghum methylatio... 44 6.0 1
(CW141433) 104_532_11136311_148_34928_090 Sorghum methylatio... 44 6.0 1
(CW092181) 104_454_10998993_116_33042_039 Sorghum methylatio... 44 6.0 1
(CL156312) 104_343_10782779_116_31476_107 Sorghum methylatio... 44 6.0 1
(CC244788) CH261-106A12_Sp6.1 CH261 Gallus gallus genomic cl... 44 6.0 1
(EC758141) PPE00003738 Agencourt Biosciences Agen-0020 Non-n... 44 6.0 1
(DW346154) PP_LEc0006P07f Peach shoot Prunus persica cDNA cl... 44 6.0 1
(DB757829) Apis mellifera head cDNA, RIKEN full-length enric... 44 6.0 1
(CN632445) taf17g04.y1 Hydra EST Darmstadt I Hydra magnipapi... 44 6.0 1
(AC179841) Strongylocentrotus purpuratus clone R3-1007P15, W... 36 6.1 4
(AC107024) Homo sapiens 3 BAC RP11-447J13 (Roswell Park Canc... 38 6.1 3
(AC180208) Strongylocentrotus purpuratus clone R3-3B21, WORK... 40 6.7 5
(AC123180) Rattus norvegicus clone CH230-249D12, WORKING DRA... 40 7.9 6
(CZ666081) OM__Ba0219P10.f OM__Ba Oryza minuta genomic clone... 36 8.1 2
(AX344575) Sequence 26 from Patent WO0200932. 32 9.8 5

>(BJ337618) Dictyostelium discoideum cDNA clone:dda58i02, 5' end,
single read.
Length = 624

Score = 1231 bits (621), Expect = 0.0
Identities = 624/624 (100%)
Strand = Plus / Plus


Query: 1 atnaaattcctataaaagagatcttattgttattttaaattgtgatgaaaaccaacatta 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 atnaaattcctataaaagagatcttattgttattttaaattgtgatgaaaaccaacatta 60


Query: 61 tcaattagtttcaactttagaatctccaacatgtgtatatacaataacaattaaaactaa 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tcaattagtttcaactttagaatctccaacatgtgtatatacaataacaattaaaactaa 120


Query: 121 atatgtatgtgaatcaacaatttattacaatagaattaactatacctattatgatattac 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 atatgtatgtgaatcaacaatttattacaatagaattaactatacctattatgatattac 180


Query: 181 tccaataaaaacaacaaaagatagtccaaaaactgtagatattgttgttggtggatatcc 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 tccaataaaaacaacaaaagatagtccaaaaactgtagatattgttgttggtggatatcc 240


Query: 241 atataaactttattacggtataggtaatactgttaattattgctcaaatcaagtggagtc 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 atataaactttattacggtataggtaatactgttaattattgctcaaatcaagtggagtc 300


Query: 301 agttccaggtgttgattatcaagcttgccaatatctcagcggtcttgttattcaagtcgg 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 agttccaggtgttgattatcaagcttgccaatatctcagcggtcttgttattcaagtcgg 360


Query: 361 tagtttaaaaaatacatcaatgtatataagtaataatggtataagtatatatcataccac 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tagtttaaaaaatacatcaatgtatataagtaataatggtataagtatatatcataccac 420


Query: 421 accatttgatttaaccagagtatgccaaaatacaagatatcaaagagtgatacaacagca 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 accatttgatttaaccagagtatgccaaaatacaagatatcaaagagtgatacaacagca 480


Query: 481 attaacgttgtggtcagcgctacggagactgccaattattgggcatgtgaatatacaatc 540
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 attaacgttgtggtcagcgctacggagactgccaattattgggcatgtgaatatacaatc 540


Query: 541 gaaattaaaaccaaatatgcatgtccaattaattatgcaccagtattaccagttgttgga 600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 gaaattaaaaccaaatatgcatgtccaattaattatgcaccagtattaccagttgttgga 600


Query: 601 aatccatgtttatacacttgcaca 624
||||||||||||||||||||||||
Sbjct: 601 aatccatgtttatacacttgcaca 624

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 745,326,344
Number of extensions: 45431261
Number of successful extensions: 3877092
Number of sequences better than 10.0: 57
Length of query: 633
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 610
Effective length of database: 93,106,754,628
Effective search space: 56795120323080
Effective search space used: 56795120323080
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7. 4
Homology vs Protein
Query= Contig-U12787-1 (Contig-U12787-1Q) /CSM_Contig/Contig-U12787-1Q.Seq.d
(633 letters)

Database: nrp_B
3,236,559 sequences; 1,051,180,864 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: 3236559
Number of Hits to DB: 984,566,038
Number of extensions: 19192764
Number of successful extensions: 36262
Number of sequences better than 10.0: 0
Number of HSP's gapped: 36252
Number of HSP's successfully gapped: 0
Length of query: 211
Length of database: 1,051,180,864
Length adjustment: 123
Effective length of query: 88
Effective length of database: 653,084,107
Effective search space: 57471401416
Effective search space used: 57471401416
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: 0.78 gvh: 0.53 alm: 0.48 top: 0.53 tms: 0.00 mit: 0.29 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

52.0 %: nuclear
32.0 %: cytoplasmic
8.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: peroxisomal

>> prediction for Contig-U12787-1 is nuc

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