Contig-U04155-1
Contig ID Contig-U04155-1
Contig update 2002. 9.13
Contig sequence
>Contig-U04155-1 (Contig-U04155-1Q) /CSM_Contig/Contig-U04155-1Q.Seq.d
TAAACTATATGCTGCTTGTGTTGATGCTGTTAAAGCTTTCTATCCAAAAG
ATACAGTTTTTGCTGAAATGTGTCAATCTTACGTTAAATAATACCAAAGT
ATTATTTAATTCANTATAAACACATCCAGTACTCTATAGTTTAAGTATAA
TAAAGACATCTCATCTAGCATGAGAACTTCAAAATAAAACGCCACATTCA
TAATGTAAGGAATTATCGGAGTAAATCCGATTAGAGACACAATTAGTAAA
ATATGATCACGCACTCTTGATCTGAAAGATCAAACAAGAGTGTTTCCGAA
AATTTTAGCAAATTGTATTCTGAATTTGCTAA

Gap no gap
Contig length 332
Chromosome number (1..6, M) M
Chromosome length 55569
Start point 16571
End point 16904
Strand (PLUS/MINUS) PLUS
Number of clones 2
Number of EST 2
Link to clone list U04155
List of clone(s)

est1=SLH845E,1,333
est2=SLG807Z,179,334
Translated Amino Acid sequence
NYMLLVLMLLKLSIQKIQFLLKCVNLTLNNTKVLFNSX*thpvlyslsiiktshla*elq
nktphs*ckelse*irletqlvkydhalli*kikqecfrkf*qivf*ic*


Translated Amino Acid sequence (All Frames)
Frame A:
*ticclc*cc*sflskrysfc*nvsilr*iipkyylixykhiqysiv*v**rhli*henf
kikrhihnvrnyrsksd*rhn**nmiths*sersnksvsenfsklysefa


Frame B:
klyaacvdavkafypkdtvfaemcqsyvk*yqsii*fxintsstl*fkynkdisssmrts
k*natfim*giigvnpirdtiski*srtldlkdqtrvfpkilancilnll


Frame C:
NYMLLVLMLLKLSIQKIQFLLKCVNLTLNNTKVLFNSX*thpvlyslsiiktshla*elq
nktphs*ckelse*irletqlvkydhalli*kikqecfrkf*qivf*ic*


own update 2004. 6. 9
Homology vs CSM-cDNA
Query= Contig-U04155-1 (Contig-U04155-1Q)
/CSM_Contig/Contig-U04155-1Q.Seq.d
(332 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U04155-1 (Contig-U04155-1Q) /CSM_Contig/Conti... 652 0.0
Contig-U12530-1 (Contig-U12530-1Q) /CSM_Contig/Conti... 34 0.090
Contig-U06310-1 (Contig-U06310-1Q) /CSM_Contig/Conti... 34 0.090
Contig-U05182-1 (Contig-U05182-1Q) /CSM_Contig/Conti... 34 0.090
Contig-U12817-1 (Contig-U12817-1Q) /CSM_Contig/Conti... 32 0.36
Contig-U13021-1 (Contig-U13021-1Q) /CSM_Contig/Conti... 30 1.4
Contig-U12314-1 (Contig-U12314-1Q) /CSM_Contig/Conti... 30 1.4
Contig-U12256-1 (Contig-U12256-1Q) /CSM_Contig/Conti... 30 1.4
Contig-U11649-1 (Contig-U11649-1Q) /CSM_Contig/Conti... 30 1.4
Contig-U11611-1 (Contig-U11611-1Q) /CSM_Contig/Conti... 30 1.4

>Contig-U04155-1 (Contig-U04155-1Q) /CSM_Contig/Contig-U04155-1Q.Seq.d
Length = 332

Score = 652 bits (329), Expect = 0.0
Identities = 332/332 (100%)
Strand = Plus / Plus


Query: 1 taaactatatgctgcttgtgttgatgctgttaaagctttctatccaaaagatacagtttt 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 taaactatatgctgcttgtgttgatgctgttaaagctttctatccaaaagatacagtttt 60


Query: 61 tgctgaaatgtgtcaatcttacgttaaataataccaaagtattatttaattcantataaa 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tgctgaaatgtgtcaatcttacgttaaataataccaaagtattatttaattcantataaa 120


Query: 121 cacatccagtactctatagtttaagtataataaagacatctcatctagcatgagaacttc 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 cacatccagtactctatagtttaagtataataaagacatctcatctagcatgagaacttc 180


Query: 181 aaaataaaacgccacattcataatgtaaggaattatcggagtaaatccgattagagacac 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 aaaataaaacgccacattcataatgtaaggaattatcggagtaaatccgattagagacac 240


Query: 241 aattagtaaaatatgatcacgcactcttgatctgaaagatcaaacaagagtgtttccgaa 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 aattagtaaaatatgatcacgcactcttgatctgaaagatcaaacaagagtgtttccgaa 300


Query: 301 aattttagcaaattgtattctgaatttgctaa 332
||||||||||||||||||||||||||||||||
Sbjct: 301 aattttagcaaattgtattctgaatttgctaa 332


>Contig-U12530-1 (Contig-U12530-1Q) /CSM_Contig/Contig-U12530-1Q.Seq.d
Length = 1440

Score = 34.2 bits (17), Expect = 0.090
Identities = 20/21 (95%)
Strand = Plus / Minus


Query: 240 caattagtaaaatatgatcac 260
|||||| ||||||||||||||
Sbjct: 84 caattaataaaatatgatcac 64


>Contig-U06310-1 (Contig-U06310-1Q) /CSM_Contig/Contig-U06310-1Q.Seq.d
Length = 488

Score = 34.2 bits (17), Expect = 0.090
Identities = 17/17 (100%)
Strand = Plus / Plus


Query: 37 tttctatccaaaagata 53
|||||||||||||||||
Sbjct: 290 tttctatccaaaagata 306


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: 2663
Number of Sequences: 6905
Number of extensions: 2663
Number of successful extensions: 226
Number of sequences better than 10.0: 52
length of query: 332
length of database: 5,674,871
effective HSP length: 15
effective length of query: 317
effective length of database: 5,571,296
effective search space: 1766100832
effective search space used: 1766100832
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. 6.14
Homology vs DNA
Query= Contig-U04155-1 (Contig-U04155-1Q) /CSM_Contig/Contig-U04155-1Q.Seq.d
(332 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

(AU039470) Dictyostelium discoideum slug cDNA, clone SLH845. 652 0.0 1
(AB000109) Dictyostelium discoideum mitochondrial DNA, compl... 636 e-178 1
(AU061967) Dictyostelium discoideum slug cDNA, clone SLG807. 307 1e-79 1
(DQ336395) Dictyostelium citrinum mitochondrion, complete ge... 143 5e-30 1
(DH195244) Oryzias latipes Fosmid clone:GOLWFno482_n20, forw... 46 0.82 1
(AL772154) Zebrafish DNA sequence from clone CH211-101N13 in... 36 2.2 4
(AC022142) Homo sapiens chromosome 5 clone CTD-2341D24, comp... 44 3.2 1
(AC016567) Homo sapiens chromosome 5 clone CTC-564E20, compl... 44 3.2 1
(AC008653) Homo sapiens chromosome 5 clone CTB-18M1, complet... 44 3.2 1
(AC008377) Homo sapiens chromosome 5 clone CTC-208O22, compl... 44 3.2 1
(AC118460) Homo sapiens chromosome 5 clone RP11-372A2, WORKI... 44 3.2 1
(EJ985790) 1093023008707 Global-Ocean-Sampling_GS-30-02-01-1... 44 3.2 1
(EJ979433) 1093022143503 Global-Ocean-Sampling_GS-30-02-01-1... 44 3.2 1
(EJ701248) 1092956037257 Global-Ocean-Sampling_GS-30-02-01-1... 44 3.2 1
(EJ564562) 1092959697499 Global-Ocean-Sampling_GS-29-01-01-1... 44 3.2 1
(EJ064690) 1095458026968 Global-Ocean-Sampling_GS-26-01-01-1... 44 3.2 1
(CG023574) ZMMBBc0559I20r ZMMBBc Zea mays subsp. mays genomi... 44 3.2 1
(CD748807) rw42h03.y1 Heterodera glycines J4 Heterodera glyc... 44 3.2 1

>(AU039470) Dictyostelium discoideum slug cDNA, clone SLH845.
Length = 333

Score = 652 bits (329), Expect = 0.0
Identities = 332/332 (100%)
Strand = Plus / Minus


Query: 1 taaactatatgctgcttgtgttgatgctgttaaagctttctatccaaaagatacagtttt 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 332 taaactatatgctgcttgtgttgatgctgttaaagctttctatccaaaagatacagtttt 273


Query: 61 tgctgaaatgtgtcaatcttacgttaaataataccaaagtattatttaattcantataaa 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 272 tgctgaaatgtgtcaatcttacgttaaataataccaaagtattatttaattcantataaa 213


Query: 121 cacatccagtactctatagtttaagtataataaagacatctcatctagcatgagaacttc 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 212 cacatccagtactctatagtttaagtataataaagacatctcatctagcatgagaacttc 153


Query: 181 aaaataaaacgccacattcataatgtaaggaattatcggagtaaatccgattagagacac 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 152 aaaataaaacgccacattcataatgtaaggaattatcggagtaaatccgattagagacac 93


Query: 241 aattagtaaaatatgatcacgcactcttgatctgaaagatcaaacaagagtgtttccgaa 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 92 aattagtaaaatatgatcacgcactcttgatctgaaagatcaaacaagagtgtttccgaa 33


Query: 301 aattttagcaaattgtattctgaatttgctaa 332
||||||||||||||||||||||||||||||||
Sbjct: 32 aattttagcaaattgtattctgaatttgctaa 1

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 395,621,673
Number of extensions: 21909361
Number of successful extensions: 1649434
Number of sequences better than 10.0: 18
Length of query: 332
Length of database: 101,790,757,118
Length adjustment: 23
Effective length of query: 309
Effective length of database: 99,442,330,388
Effective search space: 30727680089892
Effective search space used: 30727680089892
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 7.29
Homology vs Protein
Query= Contig-U04155-1 (Contig-U04155-1Q) /CSM_Contig/Contig-U04155-1Q.Seq.d
(332 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

CP001087_1499(CP001087|pid:none) Desulfobacterium autotrophicum ... 33 4.2

>CP001087_1499(CP001087|pid:none) Desulfobacterium autotrophicum
HRM2, complete genome.
Length = 418

Score = 32.7 bits (73), Expect = 4.2
Identities = 16/56 (28%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Frame = -3

Query: 252 ILLIVSLIGFTPIIPYIMNVAFYFEVLMLDEMSLLYLNYRVL--DVFIXN*IILWY 91
I+L+VS++ TP +P+ + A L +MS L+ + ++ D F +++WY
Sbjct: 245 IILLVSILHLTPRVPFTLTPA------QLADMSTLFFGFSIVWGDFFYSQFVVIWY 294

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: 455,350,361
Number of extensions: 7576577
Number of successful extensions: 13560
Number of sequences better than 10.0: 1
Number of HSP's gapped: 13560
Number of HSP's successfully gapped: 1
Length of query: 110
Length of database: 1,061,185,681
Length adjustment: 77
Effective length of query: 33
Effective length of database: 809,515,185
Effective search space: 26714001105
Effective search space used: 26714001105
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: 28 (15.4 bits)

PSORT

psg: 0.72 gvh: 0.68 alm: 0.34 top: 0.53 tms: 0.00 mit: 0.40 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 %: nuclear
36.0 %: cytoplasmic
20.0 %: mitochondrial
4.0 %: vesicles of secretory system

>> prediction for Contig-U04155-1 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) 2
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