Contig-U03534-1
Contig ID Contig-U03534-1
Contig update 2002. 9.13
Contig sequence
>Contig-U03534-1 (Contig-U03534-1Q) /CSM_Contig/Contig-U03534-1Q.Seq.d
GTCCATTGGTTTGTGAAGTTGGTAAATATGTTTNTGAACGTATTTCACAA
CCATCCTTCCTTAAAAGAGGTTCAAGAAAAAGGTNAATATTTATNNTGAT
GGTTTAAANAAATTAAAAGATCGNATTCCCAAAGTCAATTGTTAGAAATT
AGAACAGTTGGNGGTCTATTTGCTGGTATTCNATTGNATCACAATGTAAG
TGATTTGGTTTCANATGCTAAATCTCAAAANATTTTAATCATTA

Gap no gap
Contig length 244
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 2942246
End point 2942002
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U03534
List of clone(s)

est1=SFE830Z,1,245
Translated Amino Acid sequence
vhwfvklvnmfxnvfhnhpslkevqekgxylx*WFKXIKRSXSQSQLLEIRTVGGLFAGI
XLXHNVSDLVSXAKSQXILII


Translated Amino Acid sequence (All Frames)
Frame A:
vhwfvklvnmfxnvfhnhpslkevqekgxylx*WFKXIKRSXSQSQLLEIRTVGGLFAGI
XLXHNVSDLVSXAKSQXILII


Frame B:
sigl*sw*icx*tyfttilp*krfkkkvniyxdglxklkdripkvnc*kleqlxvyllvf
xxitm*viwfxmlnlkxf*sl


Frame C:
plvcevgkyvxerisqpsflkrgsrkrxifxxmv*xn*kixfpksivrn*nswxsicwys
ixsqck*fgfxc*iskxfnh


own update 2004. 6. 9
Homology vs CSM-cDNA
Query= Contig-U03534-1 (Contig-U03534-1Q)
/CSM_Contig/Contig-U03534-1Q.Seq.d
(244 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U03534-1 (Contig-U03534-1Q) /CSM_Contig/Conti... 383 e-107
Contig-U14335-1 (Contig-U14335-1Q) /CSM_Contig/Conti... 40 0.001
Contig-U12492-1 (Contig-U12492-1Q) /CSM_Contig/Conti... 34 0.065
Contig-U14330-1 (Contig-U14330-1Q) /CSM_Contig/Conti... 32 0.26
Contig-U13925-1 (Contig-U13925-1Q) /CSM_Contig/Conti... 30 1.0
Contig-U10497-1 (Contig-U10497-1Q) /CSM_Contig/Conti... 30 1.0
Contig-U06607-1 (Contig-U06607-1Q) /CSM_Contig/Conti... 30 1.0
Contig-U14742-1 (Contig-U14742-1Q) /CSM_Contig/Conti... 28 4.0
Contig-U14190-1 (Contig-U14190-1Q) /CSM_Contig/Conti... 28 4.0
Contig-U13915-1 (Contig-U13915-1Q) /CSM_Contig/Conti... 28 4.0

>Contig-U03534-1 (Contig-U03534-1Q) /CSM_Contig/Contig-U03534-1Q.Seq.d
Length = 244

Score = 383 bits (193), Expect = e-107
Identities = 238/244 (97%)
Strand = Plus / Plus


Query: 1 gtccattggtttgtgaagttggtaaatatgtttntgaacgtatttcacaaccatccttcc 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 gtccattggtttgtgaagttggtaaatatgtttntgaacgtatttcacaaccatccttcc 60


Query: 61 ttaaaagaggttcaagaaaaaggtnaatatttatnntgatggtttnnnnnnnttaaaaga 120
||||||||||||||||||||||||||||||||||||||||||||| | ||||||||
Sbjct: 61 ttaaaagaggttcaagaaaaaggtnaatatttatnntgatggtttaaanaaattaaaaga 120


Query: 121 tcgnattcccaaagtcaattgttagaaattagaacagttggnggtctatttgctggtatt 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 tcgnattcccaaagtcaattgttagaaattagaacagttggnggtctatttgctggtatt 180


Query: 181 cnattgnatcacaatgtaagtgatttggtttcanatgctaaatctcaaaanattttaatc 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 cnattgnatcacaatgtaagtgatttggtttcanatgctaaatctcaaaanattttaatc 240


Query: 241 atta 244
||||
Sbjct: 241 atta 244


>Contig-U14335-1 (Contig-U14335-1Q) /CSM_Contig/Contig-U14335-1Q.Seq.d
Length = 1305

Score = 40.1 bits (20), Expect = 0.001
Identities = 20/20 (100%)
Strand = Plus / Plus


Query: 10 tttgtgaagttggtaaatat 29
||||||||||||||||||||
Sbjct: 828 tttgtgaagttggtaaatat 847


>Contig-U12492-1 (Contig-U12492-1Q) /CSM_Contig/Contig-U12492-1Q.Seq.d
Length = 1854

Score = 34.2 bits (17), Expect = 0.065
Identities = 17/17 (100%)
Strand = Plus / Plus


Query: 7 tggtttgtgaagttggt 23
|||||||||||||||||
Sbjct: 659 tggtttgtgaagttggt 675


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: 1223
Number of Sequences: 6905
Number of extensions: 1223
Number of successful extensions: 329
Number of sequences better than 10.0: 25
length of query: 244
length of database: 5,674,871
effective HSP length: 15
effective length of query: 229
effective length of database: 5,571,296
effective search space: 1275826784
effective search space used: 1275826784
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 14 (28.2 bits)
dna update 2009. 6. 2
Homology vs DNA
Query= Contig-U03534-1 (Contig-U03534-1Q) /CSM_Contig/Contig-U03534-1Q.Seq.d
(244 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

(BJ397960) Dictyostelium discoideum cDNA clone:dds10l08, 3' ... 418 e-113 1
(CC273019) CH261-131D7_Sp6.1 CH261 Gallus gallus genomic clo... 46 0.59 1
(AC233591) Eulemur macaco macaco clone CH273-310G19, WORKING... 44 2.3 1
(AL240698) Tetraodon nigroviridis genome survey sequence PUC... 44 2.3 1
(CU928038) S.lycopersicum DNA sequence from clone LE_HBa-29G... 42 9.2 1
(AC181972) Medicago truncatula chromosome 8 clone mth2-43h18... 42 9.2 1
(ET107664) QM0AAC14CD07RM2 CCH3 Citrus clementina genomic cl... 42 9.2 1

>(BJ397960) Dictyostelium discoideum cDNA clone:dds10l08, 3' end,
single read.
Length = 245

Score = 418 bits (211), Expect = e-113
Identities = 244/244 (100%)
Strand = Plus / Minus


Query: 1 gtccattggtttgtgaagttggtaaatatgtttntgaacgtatttcacaaccatccttcc 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 245 gtccattggtttgtgaagttggtaaatatgtttntgaacgtatttcacaaccatccttcc 186


Query: 61 ttaaaagaggttcaagaaaaaggtnaatatttatnntgatggtttaaanaaattaaaaga 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 185 ttaaaagaggttcaagaaaaaggtnaatatttatnntgatggtttaaanaaattaaaaga 126


Query: 121 tcgnattcccaaagtcaattgttagaaattagaacagttggnggtctatttgctggtatt 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 125 tcgnattcccaaagtcaattgttagaaattagaacagttggnggtctatttgctggtatt 66


Query: 181 cnattgnatcacaatgtaagtgatttggtttcanatgctaaatctcaaaanattttaatc 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65 cnattgnatcacaatgtaagtgatttggtttcanatgctaaatctcaaaanattttaatc 6


Query: 241 atta 244
||||
Sbjct: 5 atta 2

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 224,955,116
Number of extensions: 12786746
Number of successful extensions: 2621071
Number of sequences better than 10.0: 7
Length of query: 244
Length of database: 101,790,757,118
Length adjustment: 23
Effective length of query: 221
Effective length of database: 99,442,330,388
Effective search space: 21976755015748
Effective search space used: 21976755015748
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 7.28
Homology vs Protein
Query= Contig-U03534-1 (Contig-U03534-1Q) /CSM_Contig/Contig-U03534-1Q.Seq.d
(244 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

(Q55DT8) RecName: Full=Probable acetylornithine aminotransferase... 72 2e-19
AP009049_1447(AP009049|pid:none) Clostridium kluyveri NBRC 12016... 33 4.2

>(Q55DT8) RecName: Full=Probable acetylornithine aminotransferase,
mitochondrial; Short=ACOAT;
EC=2.6.1.11; Flags: Precursor;
Length = 453

Score = 72.4 bits (176), Expect(2) = 2e-19
Identities = 42/61 (68%), Positives = 44/61 (72%)
Frame = +1

Query: 61 LKEVQEKGXYLX*WFKXIKRSXSQSQLLEIRTVGGLFAGIXLXHNVSDLVSXAKSQXILI 240
LKEVQEKG YL K +K S +LEIRTVGGLF GI L HNVSDLVS AKSQ ILI
Sbjct: 355 LKEVQEKGKYLTDGLKKLKDQFPNS-ILEIRTVGGLFVGIQLDHNVSDLVSYAKSQKILI 413

Query: 241 I 243
I
Sbjct: 414 I 414

Score = 45.1 bits (105), Expect(2) = 2e-19
Identities = 21/26 (80%), Positives = 21/26 (80%)
Frame = +3

Query: 3 PLVCEVGKYVXERISQPSFLKRGSRK 80
PLVCEVGKYV ERISQPSFLK K
Sbjct: 336 PLVCEVGKYVFERISQPSFLKEVQEK 361

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: 281,614,030
Number of extensions: 3665671
Number of successful extensions: 3918
Number of sequences better than 10.0: 2
Number of HSP's gapped: 3915
Number of HSP's successfully gapped: 3
Length of query: 81
Length of database: 1,061,185,681
Length adjustment: 51
Effective length of query: 30
Effective length of database: 894,494,833
Effective search space: 26834844990
Effective search space used: 26834844990
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: 27 (15.0 bits)

PSORT

psg: 0.75 gvh: 0.51 alm: 0.40 top: 0.53 tms: 0.00 mit: 0.42 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: 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

40.0 %: mitochondrial
40.0 %: nuclear
16.0 %: cytoplasmic
4.0 %: cytoskeletal

>> prediction for Contig-U03534-1 is mit

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) 0
SH (FL, L) 0
SF (FL, S) 1
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0