Contig-U06090-1
Contig ID Contig-U06090-1
Contig update 2002. 9.13
Contig sequence
>Contig-U06090-1 (Contig-U06090-1Q) /CSM_Contig/Contig-U06090-1Q.Seq.d
TATTTGGGGCAATTNCAAANGGTGGAAANAAAAAAAACGTTGGNTATCTN
TACNCCCCNANCAATGNAAACCAATNTCCATCAACTGNANCCGNANANCA
AGNAATNTCANACAANAAANATGGNTCNTTTTATTTACCNGTTTNTCATG
ATTTANCNATTTTANAATTCCCNTTACCCCCNCCAAAAAANAANTCAGAC
NCANCAAGTGATCAANANTCAAATTCNTTAAAANTANCNCCCCAANTTTC
NATTTTAANAANTTTTACNNTATCNTTAANTTTTCNATTTATTTTTTAAA
AACNATCNAAAATAATAANAAAAA

Gap no gap
Contig length 324
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 U06090
List of clone(s)

est1=VFD814Z,1,325
Translated Amino Acid sequence
FGAIXXGGXKKNVGYLYXPXNXNQXPSTXXXXQXXSXXKXGSFYLPVXHDLXILXFPLPP
PKXXSDXXSDQXSNSLKXXPQXSILXXFTXSLXFXFIF*kxskiixk


Translated Amino Acid sequence (All Frames)
Frame A:
ylgqxqxvexkktlxixtpxxmxtnxhqlxpxxkxxxtxxmxxfiyxfxmixxfxnsxyp
xqkxxqtxqvixxqix*xxxpxfxf*xxlxyx*xfxlffknxxk**xk


Frame B:
iwgnxkxwkxkkrwxsxxpxqxkpxsinxxrxxxnxxqxxwxxlftxxs*fxxfxipxtp
xkkxxrxxk*sxxkfxkxxxpxfxfxxfyxixxfsiyflktixnnxk


Frame C:
FGAIXXGGXKKNVGYLYXPXNXNQXPSTXXXXQXXSXXKXGSFYLPVXHDLXILXFPLPP
PKXXSDXXSDQXSNSLKXXPQXSILXXFTXSLXFXFIF*kxskiixk


own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U06090-1 (Contig-U06090-1Q)
/CSM_Contig/Contig-U06090-1Q.Seq.d
(324 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U06090-1 (Contig-U06090-1Q) /CSM_Contig/Conti... 242 2e-64
Contig-U09228-1 (Contig-U09228-1Q) /CSM_Contig/Conti... 198 3e-51
Contig-U13472-1 (Contig-U13472-1Q) /CSM_Contig/Conti... 34 0.088
Contig-U00454-1 (Contig-U00454-1Q) /CSM_Contig/Conti... 34 0.088
Contig-U14849-1 (Contig-U14849-1Q) /CSM_Contig/Conti... 32 0.35
Contig-U14171-1 (Contig-U14171-1Q) /CSM_Contig/Conti... 32 0.35
Contig-U13946-1 (Contig-U13946-1Q) /CSM_Contig/Conti... 32 0.35
Contig-U13837-1 (Contig-U13837-1Q) /CSM_Contig/Conti... 32 0.35
Contig-U12408-1 (Contig-U12408-1Q) /CSM_Contig/Conti... 32 0.35
Contig-U11681-1 (Contig-U11681-1Q) /CSM_Contig/Conti... 32 0.35

>Contig-U06090-1 (Contig-U06090-1Q) /CSM_Contig/Contig-U06090-1Q.Seq.d
Length = 324

Score = 242 bits (122), Expect = 2e-64
Identities = 280/287 (97%)
Strand = Plus / Plus


Query: 38 cgttggntatctntacnccccnancaatgnaaaccaatntccatcaactgnanccgnana 97
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 38 cgttggntatctntacnccccnancaatgnaaaccaatntccatcaactgnanccgnana 97


Query: 98 ncaagnaatntcanacaanaaanatggntcnttttatttaccngtttntcatgatttanc 157
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98 ncaagnaatntcanacaanaaanatggntcnttttatttaccngtttntcatgatttanc 157


Query: 158 nattttanaattcccnttacccccnccnnnnnnnnantcagacncancaagtgatcaana 217
||||||||||||||||||||||||||| | |||||||||||||||||||||||||
Sbjct: 158 nattttanaattcccnttacccccnccaaaaaanaantcagacncancaagtgatcaana 217


Query: 218 ntcaaattcnttaaaantancnccccaantttcnattttaanaanttttacnntatcntt 277
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 218 ntcaaattcnttaaaantancnccccaantttcnattttaanaanttttacnntatcntt 277


Query: 278 aanttttcnatttattttttaaaaacnatcnaaaataataanaaaaa 324
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 278 aanttttcnatttattttttaaaaacnatcnaaaataataanaaaaa 324


>Contig-U09228-1 (Contig-U09228-1Q) /CSM_Contig/Contig-U09228-1Q.Seq.d
Length = 1250

Score = 198 bits (100), Expect = 3e-51
Identities = 230/289 (79%), Gaps = 2/289 (0%)
Strand = Plus / Plus


Query: 38 cgttggntatctntacnccccnancaatgnaaaccaatntccatcaactgnanccgnana 97
|||||| ||||| ||| |||| | ||||| |||||||| ||||||||||| | ||| | |
Sbjct: 954 cgttggttatctctacaccccaatcaatgtaaaccaatctccatcaactgcatccgcata 1013


Query: 98 ncaagnaatntcanacaanaaanatggntcnttttatttaccngtttntcatgatttanc 157
|||| ||| ||| |||| ||| |||| || ||||||||||| |||| |||||||||| |
Sbjct: 1014 tcaagtaatctcatacaataaagatggttcattttatttaccagtttctcatgatttatc 1073


Query: 158 nattttanaattcccnttacccccnccnnnnnnnnantcagacncancaagtgatcaana 217
|||||| ||||||| ||||| || || | |||||| || ||||||||||| |
Sbjct: 1074 aattttagaattcccattaccaccaccaaaaaataattcagactcatcaagtgatcaaga 1133


Query: 218 ntcaaattcnttaaaantancnccccaantttcnattttaanaanttt-tacnntat-cn 275
|||||||| |||||| || | || ||| |||| ||||||| || ||| ||| ||| |
Sbjct: 1134 ttcaaattctttaaaattatcaccacaattttcaattttaataattttgtacattatgct 1193


Query: 276 ttaanttttcnatttattttttaaaaacnatcnaaaataataanaaaaa 324
|||| ||||| ||||||||||||||||| ||| |||||||||| |||||
Sbjct: 1194 ttaatttttcaatttattttttaaaaacaatcaaaaataataataaaaa 1242


>Contig-U13472-1 (Contig-U13472-1Q) /CSM_Contig/Contig-U13472-1Q.Seq.d
Length = 695

Score = 34.2 bits (17), Expect = 0.088
Identities = 17/17 (100%)
Strand = Plus / Minus


Query: 287 atttattttttaaaaac 303
|||||||||||||||||
Sbjct: 520 atttattttttaaaaac 504


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: 3757
Number of Sequences: 6905
Number of extensions: 3757
Number of successful extensions: 304
Number of sequences better than 10.0: 137
length of query: 324
length of database: 5,674,871
effective HSP length: 15
effective length of query: 309
effective length of database: 5,571,296
effective search space: 1721530464
effective search space used: 1721530464
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 2008.11. 7
Homology vs DNA
Query= Contig-U06090-1 (Contig-U06090-1Q) /CSM_Contig/Contig-U06090-1Q.Seq.d
(324 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

(BJ430655) Dictyostelium discoideum cDNA clone:ddv8l04, 3' e... 283 2e-79 2
(AU039422) Dictyostelium discoideum slug cDNA, clone SLH757. 268 1e-67 1
(BJ435359) Dictyostelium discoideum cDNA clone:ddv26k20, 3' ... 198 7e-54 2

>(BJ430655) Dictyostelium discoideum cDNA clone:ddv8l04, 3' end,
single read.
Length = 325

Score = 283 bits (143), Expect(2) = 2e-79
Identities = 287/287 (100%)
Strand = Plus / Minus


Query: 38 cgttggntatctntacnccccnancaatgnaaaccaatntccatcaactgnanccgnana 97
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 288 cgttggntatctntacnccccnancaatgnaaaccaatntccatcaactgnanccgnana 229


Query: 98 ncaagnaatntcanacaanaaanatggntcnttttatttaccngtttntcatgatttanc 157
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 228 ncaagnaatntcanacaanaaanatggntcnttttatttaccngtttntcatgatttanc 169


Query: 158 nattttanaattcccnttacccccnccaaaaaanaantcagacncancaagtgatcaana 217
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 168 nattttanaattcccnttacccccnccaaaaaanaantcagacncancaagtgatcaana 109


Query: 218 ntcaaattcnttaaaantancnccccaantttcnattttaanaanttttacnntatcntt 277
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 108 ntcaaattcnttaaaantancnccccaantttcnattttaanaanttttacnntatcntt 49


Query: 278 aanttttcnatttattttttaaaaacnatcnaaaataataanaaaaa 324
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 48 aanttttcnatttattttttaaaaacnatcnaaaataataanaaaaa 2

Score = 44.1 bits (22), Expect(2) = 2e-79
Identities = 28/28 (100%)
Strand = Plus / Minus


Query: 1 tatttggggcaattncaaanggtggaaa 28
||||||||||||||||||||||||||||
Sbjct: 325 tatttggggcaattncaaanggtggaaa 298

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 124,027,976
Number of extensions: 11578288
Number of successful extensions: 803617
Number of sequences better than 10.0: 3
Length of query: 324
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 301
Effective length of database: 93,106,754,628
Effective search space: 28025133143028
Effective search space used: 28025133143028
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)

protein update 2009. 6.21
Homology vs Protein
Query= Contig-U06090-1 (Contig-U06090-1Q) /CSM_Contig/Contig-U06090-1Q.Seq.d
(324 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: 144,605,737
Number of extensions: 1163662
Number of successful extensions: 222
Number of sequences better than 10.0: 0
Number of HSP's gapped: 222
Number of HSP's successfully gapped: 0
Length of query: 108
Length of database: 1,040,966,779
Length adjustment: 76
Effective length of query: 32
Effective length of database: 797,441,119
Effective search space: 25518115808
Effective search space used: 25518115808
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: 0.80 gvh: 0.42 alm: 0.40 top: 0.53 tms: 0.00 mit: 0.18 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

56.0 %: cytoplasmic
32.0 %: nuclear
4.0 %: cytoskeletal
4.0 %: vesicles of secretory system
4.0 %: endoplasmic reticulum

>> prediction for Contig-U06090-1 is cyt

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