Contig-U05799-1
Contig ID Contig-U05799-1
Contig update 2001. 8.30
Contig sequence
>Contig-U05799-1 (Contig-U05799-1Q) /CSM_Contig/Contig-U05799-1Q.Seq.d
AGCGCGCCNTNCCNCACAAGGGACCAAGCGGGACCGGCCCCCNNNGNGNN
GCCACNCNCCNCANTACCCCCAGGNGACCCCCNCNTTAGGTGAANAAANN
CCANAGNNCTCNTNNGGGGNATANTGNAACATANGNGNAACCCCNTANAG
NNCCCAATCCTTTGGCNNACNNCTTTNGGAGNTNTNGNNNTTTNNANGNA
ATGGGAAAAAGGGGGATTTAACCAAATGGCCCATTTATTTTTTTACAGCA
TTGGAATTTTAATAACCCCAATAACCCTAATATAGGTATCCCTGGAAATC
CACCGGTATTTGGGGTGATGGAAGNATTAAAAAAATGGTTCATCAATTAA
ATAATTTCCCCATTGGTTGCAAATCCTTTCCCTTGGGGATCCCGGGTGGG
GGTTCAACAATAACCTATTAGGGATTTNCTTTCAATACGGGGTTATCTGG
TCCCCTCAATANCCNTAATTTAATATACCTTTTTAAAATTATGGTATCCA
AATTTAATGGTTTTAAACCATATTTTATAGGTAAAAAAAAAAAAAAAAAA
AAAAAAAAAAGATTATGGTTTTTAAAATGGAATTACTCATTTCCAACTCT
CATAACTATAAAATCACTTTATGATAAATTCAATTTAATTAAATATTCAA
TTTAATTCAATTCAATTTGTTAAATTTAATAATCTCTGAAAGTTAATTTA
TTTGAAGAGATATAATCTTATAACTATATACCTTATTTCAATTGTTAAAA
AAAAAAAAAAAAAAAAAAGTAACAATTAAATAAAATTAAATAATAAAAAA
ACAAAAAAAAAAA

Gap no gap
Contig length 813
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 3267997
End point 3267678
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U05799
List of clone(s)

est1=SSL647Z,1,814
Translated Amino Acid sequence
ARXXXQGTKRDRPPXXXHXPXYPQXTPXLGEXXPXXSXGXXXNIXXTPXXXQSFGXXLXE
XXXFXXNGKKGDLTKWPIYFFTALEF**pq*p*yrypwkstgiwgdgxikkmvhqlnnfp
igcksfplgipgggstity*gfxfntglsgplnxxnliylfkimvskfngfkpyfigkkk
kkkkkkrlwflkwnysfptlitikslydkfnlikysi*fnsic*i**slkvnlfeei*sy
nyipyfnc*kkkkkkk*qlnkik**knkkk


Translated Amino Acid sequence (All Frames)
Frame A:
sapxxtrdqagpapxxxpxxxxppgdpxxr*xxxxxlxxgixxhxxnpxxxpilwxtxxg
xxxxxxxwekggfnqmahlffysigilitpitli*vsleihrylg*wkx*kngssik*fp
hwlqilslgdpgwgfnnnllgixfqygviwspqxp*fnipf*nygiqi*wf*tifyr*kk
kkkkkkkimvfkmellisnshnykitl**iqfn*ifnliqfnllnliises*fi*rdiil
*lytlfqllkkkkkkkvtik*n*iikkqkkk


Frame B:
ARXXXQGTKRDRPPXXXHXPXYPQXTPXLGEXXPXXSXGXXXNIXXTPXXXQSFGXXLXE
XXXFXXNGKKGDLTKWPIYFFTALEF**pq*p*yrypwkstgiwgdgxikkmvhqlnnfp
igcksfplgipgggstity*gfxfntglsgplnxxnliylfkimvskfngfkpyfigkkk
kkkkkkrlwflkwnysfptlitikslydkfnlikysi*fnsic*i**slkvnlfeei*sy
nyipyfnc*kkkkkkk*qlnkik**knkkk


Frame C:
raxphkgpsgtgpxxxatxxxtprxppx*vxkxxxxxxgxxxtxxxpxxxpnplaxxfxx
xxxxxxmgkrgi*pngpfiflqhwnfnnpnnpnigipgnppvfgvmexlkkwfin*iisp
lvanpfpwgsrvgvqq*pirdxlsirgylvpsixxi*ytflklwypnlmvlnhil*vkkk
kkkkkkdygf*ngithfqls*l*nhfminsi*lniqfnsiqfvkfnnl*kliylkrynli
tiylisivkkkkkkksnn*iklnnkktkkk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U05799-1 (Contig-U05799-1Q)
/CSM_Contig/Contig-U05799-1Q.Seq.d
(813 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U05799-1 (Contig-U05799-1Q) /CSM_Contig/Conti... 615 e-176
Contig-U12210-1 (Contig-U12210-1Q) /CSM_Contig/Conti... 34 0.23
Contig-U12208-1 (Contig-U12208-1Q) /CSM_Contig/Conti... 34 0.23
Contig-U04157-1 (Contig-U04157-1Q) /CSM_Contig/Conti... 34 0.23
Contig-U13388-1 (Contig-U13388-1Q) /CSM_Contig/Conti... 32 0.89
Contig-U12785-1 (Contig-U12785-1Q) /CSM_Contig/Conti... 32 0.89
Contig-U12529-1 (Contig-U12529-1Q) /CSM_Contig/Conti... 32 0.89
Contig-U11321-1 (Contig-U11321-1Q) /CSM_Contig/Conti... 32 0.89
Contig-U09577-1 (Contig-U09577-1Q) /CSM_Contig/Conti... 32 0.89
Contig-U09239-1 (Contig-U09239-1Q) /CSM_Contig/Conti... 32 0.89

>Contig-U05799-1 (Contig-U05799-1Q) /CSM_Contig/Contig-U05799-1Q.Seq.d
Length = 813

Score = 615 bits (310), Expect = e-176
Identities = 512/532 (96%)
Strand = Plus / Plus


Query: 1 agcgcgccntnccncacaagggaccaagcgggaccggcccccnnngngnngccacncncc 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 agcgcgccntnccncacaagggaccaagcgggaccggcccccnnngngnngccacncncc 60


Query: 61 ncantacccccaggngannnnnnnnttaggtgaanaaannccanagnnctcntnnggggn 120
||||||||||||||||| | ||||||||||||||||||||||||||||||||||||
Sbjct: 61 ncantacccccaggngacccccncnttaggtgaanaaannccanagnnctcntnnggggn 120


Query: 121 atantgnaacatangngnaaccccntanagnncccaatcctttggcnnacnnctttngga 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 atantgnaacatangngnaaccccntanagnncccaatcctttggcnnacnnctttngga 180


Query: 181 gntntngnnntttnnangnaatgggaaaaagggggatttaaccaaatggcccatttannn 240
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 gntntngnnntttnnangnaatgggaaaaagggggatttaaccaaatggcccatttattt 240


Query: 241 nnnnacagcattggaattttaataaccccaataaccctaatataggtatccctggaaatc 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 ttttacagcattggaattttaataaccccaataaccctaatataggtatccctggaaatc 300


Query: 301 caccggtatttggggtgatggaagnattnnnnnnntggttcatcaattaaataatttccc 360
|||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 301 caccggtatttggggtgatggaagnattaaaaaaatggttcatcaattaaataatttccc 360


Query: 361 cattggttgcaaatcctttcccttggggatcccgggtgggggttcaacaataacctatta 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 cattggttgcaaatcctttcccttggggatcccgggtgggggttcaacaataacctatta 420


Query: 421 gggatttnctttcaatacggggttatctggtcccctcaatanccntaatttaatatacct 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 gggatttnctttcaatacggggttatctggtcccctcaatanccntaatttaatatacct 480


Query: 481 ttttaaaattatggtatccaaatttaatggttttaaaccatattttataggt 532
||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 ttttaaaattatggtatccaaatttaatggttttaaaccatattttataggt 532


Score = 125 bits (63), Expect = 8e-29
Identities = 63/63 (100%)
Strand = Plus / Plus


Query: 684 ctctgaaagttaatttatttgaagagatataatcttataactatataccttatttcaatt 743
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 684 ctctgaaagttaatttatttgaagagatataatcttataactatataccttatttcaatt 743


Query: 744 gtt 746
|||
Sbjct: 744 gtt 746


Score = 123 bits (62), Expect = 3e-28
Identities = 62/62 (100%)
Strand = Plus / Plus


Query: 561 gattatggtttttaaaatggaattactcatttccaactctcataactataaaatcacttt 620
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 gattatggtttttaaaatggaattactcatttccaactctcataactataaaatcacttt 620


Query: 621 at 622
||
Sbjct: 621 at 622


>Contig-U12210-1 (Contig-U12210-1Q) /CSM_Contig/Contig-U12210-1Q.Seq.d
Length = 2168

Score = 34.2 bits (17), Expect = 0.23
Identities = 17/17 (100%)
Strand = Plus / Plus


Query: 341 catcaattaaataattt 357
|||||||||||||||||
Sbjct: 483 catcaattaaataattt 499


>Contig-U12208-1 (Contig-U12208-1Q) /CSM_Contig/Contig-U12208-1Q.Seq.d
Length = 1195

Score = 34.2 bits (17), Expect = 0.23
Identities = 17/17 (100%)
Strand = Plus / Plus


Query: 340 tcatcaattaaataatt 356
|||||||||||||||||
Sbjct: 35 tcatcaattaaataatt 51


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: 6458
Number of Sequences: 6905
Number of extensions: 6458
Number of successful extensions: 571
Number of sequences better than 10.0: 43
length of query: 813
length of database: 5,674,871
effective HSP length: 16
effective length of query: 797
effective length of database: 5,564,391
effective search space: 4434819627
effective search space used: 4434819627
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. 6
Homology vs DNA
Query= Contig-U05799-1 (Contig-U05799-1Q) /CSM_Contig/Contig-U05799-1Q.Seq.d
(813 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

(C93723) Dictyostelium discoideum slug cDNA, clone SSL647. 373 0.0 8
(AM601258) Entamoeba invadens IP1 GSS, clone inv005e12.p1k. 38 0.027 2
(AC093112) Homo sapiens BAC clone RP11-621K10 from 2, comple... 46 2.1 1
(AC230591) Bos taurus clone CH240-504E10, WORKING DRAFT SEQU... 46 2.1 1
(AC230540) Bos taurus clone CH240-505J15, WORKING DRAFT SEQU... 46 2.1 1
(AC224526) Bos taurus clone CH240-482J24, WORKING DRAFT SEQU... 46 2.1 1
(EH147557) LB01333.CR_D23 GC_BGC-13 Bos taurus cDNA clone IM... 46 2.1 1
(EK353665) 1095468266023 Global-Ocean-Sampling_GS-31-01-01-1... 32 5.2 2
(AC154418) Mus musculus BAC clone RP24-209I7 from chromosome... 44 8.1 1
(AC201674) Strongylocentrotus purpuratus clone R3-1040H2, WO... 44 8.1 1
(AC201311) Strongylocentrotus purpuratus clone R3-16K13, WOR... 44 8.1 1
(AC179829) Strongylocentrotus purpuratus clone R3-1012F22, W... 44 8.1 1
(AC179351) Strongylocentrotus purpuratus clone R3-59C12, WOR... 44 8.1 1
(AC178209) Strongylocentrotus purpuratus clone R3-1116H5, WO... 44 8.1 1
(AQ742065) HS_5566_B2_A04_SP6 RPCI-11 Human Male BAC Library... 44 8.1 1
(ET337158) S0147B20_T7 CHORI-214 Salmo salar genomic clone S... 44 8.1 1
(BH879973) ht50b05.b1 WGS-ZmaysF (JM107 adapted methyl filte... 44 8.1 1
(AE015450) Mycoplasma gallisepticum strain R complete genome. 44 8.1 1

>(C93723) Dictyostelium discoideum slug cDNA, clone SSL647.
Length = 814

Score = 373 bits (188), Expect(8) = 0.0
Identities = 197/197 (100%)
Strand = Plus / Plus


Query: 336 tggttcatcaattaaataatttccccattggttgcaaatcctttcccttggggatcccgg 395
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 336 tggttcatcaattaaataatttccccattggttgcaaatcctttcccttggggatcccgg 395


Query: 396 gtgggggttcaacaataacctattagggatttnctttcaatacggggttatctggtcccc 455
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 396 gtgggggttcaacaataacctattagggatttnctttcaatacggggttatctggtcccc 455


Query: 456 tcaatanccntaatttaatatacctttttaaaattatggtatccaaatttaatggtttta 515
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 456 tcaatanccntaatttaatatacctttttaaaattatggtatccaaatttaatggtttta 515


Query: 516 aaccatattttataggt 532
|||||||||||||||||
Sbjct: 516 aaccatattttataggt 532

Score = 161 bits (81), Expect(8) = 0.0
Identities = 84/84 (100%)
Strand = Plus / Plus


Query: 245 acagcattggaattttaataaccccaataaccctaatataggtatccctggaaatccacc 304
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 245 acagcattggaattttaataaccccaataaccctaatataggtatccctggaaatccacc 304


Query: 305 ggtatttggggtgatggaagnatt 328
||||||||||||||||||||||||
Sbjct: 305 ggtatttggggtgatggaagnatt 328

Score = 127 bits (64), Expect(8) = 0.0
Identities = 64/64 (100%)
Strand = Plus / Plus


Query: 561 gattatggtttttaaaatggaattactcatttccaactctcataactataaaatcacttt 620
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 gattatggtttttaaaatggaattactcatttccaactctcataactataaaatcacttt 620


Query: 621 atga 624
||||
Sbjct: 621 atga 624

Score = 91.7 bits (46), Expect(8) = 0.0
Identities = 46/46 (100%)
Strand = Plus / Plus


Query: 701 tttgaagagatataatcttataactatataccttatttcaattgtt 746
||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 701 tttgaagagatataatcttataactatataccttatttcaattgtt 746

Score = 75.8 bits (38), Expect(8) = 0.0
Identities = 38/38 (100%)
Strand = Plus / Plus


Query: 200 aatgggaaaaagggggatttaaccaaatggcccattta 237
||||||||||||||||||||||||||||||||||||||
Sbjct: 200 aatgggaaaaagggggatttaaccaaatggcccattta 237

Score = 65.9 bits (33), Expect(8) = 0.0
Identities = 42/42 (100%)
Strand = Plus / Plus


Query: 1 agcgcgccntnccncacaagggaccaagcgggaccggccccc 42
||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 agcgcgccntnccncacaagggaccaagcgggaccggccccc 42

Score = 46.1 bits (23), Expect(8) = 0.0
Identities = 47/47 (100%)
Strand = Plus / Plus


Query: 52 ccacncnccncantacccccaggngacccccncnttaggtgaanaaa 98
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 52 ccacncnccncantacccccaggngacccccncnttaggtgaanaaa 98

Score = 38.2 bits (19), Expect(8) = 0.0
Identities = 46/46 (100%)
Strand = Plus / Plus


Query: 121 atantgnaacatangngnaaccccntanagnncccaatcctttggc 166
||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 atantgnaacatangngnaaccccntanagnncccaatcctttggc 166

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 493,847,826
Number of extensions: 29653698
Number of successful extensions: 2132234
Number of sequences better than 10.0: 19
Length of query: 813
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 789
Effective length of database: 97,308,875,965
Effective search space: 76776703136385
Effective search space used: 76776703136385
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 6.20
Homology vs Protein
Query= Contig-U05799-1 (Contig-U05799-1Q) /CSM_Contig/Contig-U05799-1Q.Seq.d
(813 letters)

Database: nrp_A
3,204,285 sequences; 1,040,966,779 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: 3204285
Number of Hits to DB: 1,021,851,597
Number of extensions: 25770723
Number of successful extensions: 21193
Number of sequences better than 10.0: 0
Number of HSP's gapped: 21189
Number of HSP's successfully gapped: 0
Length of query: 271
Length of database: 1,040,966,779
Length adjustment: 126
Effective length of query: 145
Effective length of database: 637,226,869
Effective search space: 92397896005
Effective search space used: 92397896005
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: 32 (16.9 bits)

PSORT

psg: 0.59 gvh: 0.46 alm: 0.58 top: 0.53 tms: 0.00 mit: 0.32 mip: 0.03
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

36.0 %: mitochondrial
32.0 %: cytoplasmic
24.0 %: nuclear
4.0 %: cytoskeletal
4.0 %: peroxisomal

>> prediction for Contig-U05799-1 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) 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