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Dicty_cDB
Contig List | Clone List | cDNA Library List
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U05739-1
Contig ID Contig-U05739-1
Contig update 2001. 8.30
Contig sequence 
>Contig-U05739-1 (Contig-U05739-1Q) /CSM_Contig/Contig-U05739-1Q.Seq.d
TTTTATAACTATTATTACAATGTTCCTATTATTATAATTGAGCAACCAAT
CGATCATCAAAAAAAAAAAAAATAAAAAAAATGAAAAATAAAAAAATAAA
AAATAAAAAAAATGACCCTTTATAAATTTAAATATCTAAAAATTTTTTTT
TGATTTCTTCGAGCAAGCCAAAAAAAAAAATAAAAAAAAACTTTCGGCTT
TTTTACAATTTTATTTTTTTTATTTTTTTTTTTTAAAAAAAAGTTTTACT
TTTCCTCACTTCAAAATTTTTTTTTCTCTTTCTTTTTTTTTTATATATAT
TTGTTTTTTCACAAATAACATATTATTTTATATATATTT
Gap no gap
Contig length 339
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 6980904
End point 6980565
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U05739
List of clone(s) 

est1=SSL207F,1,340
Translated Amino Acid sequence 
fitiitmflll*lsnqsiikkkknkknek*knkk*kk*pfinlni*KFFFDFFEQAKKKN
KKKLSAFLQFYFFYFFFLKKSFTFPHFKIFFSLSFFFIYICFFTNNILFYIY
Translated Amino Acid sequence (All Frames) 
Frame A:
fynyyynvpiiiieqpidhqkkkk*kk*kikk*kikkmtlykfkylkiff*flrasqkkk
*kktfgfftilfflffffkkkfyfsslqnfffsffffyiylffhk*hiilyif


Frame B:
fitiitmflll*lsnqsiikkkknkknek*knkk*kk*pfinlni*KFFFDFFEQAKKKN
KKKLSAFLQFYFFYFFFLKKSFTFPHFKIFFSLSFFFIYICFFTNNILFYIY


Frame C:
l*lllqcsyyyn*atnrsskkkkikkmknkkiknkkndpl*i*isknfflissskpkkki
kknfrlfynfiffifff*kkvllfltskffflflfflyifvfsqityyfiyi
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U05739-1 (Contig-U05739-1Q)
/CSM_Contig/Contig-U05739-1Q.Seq.d
         (339 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U05739-1 (Contig-U05739-1Q) /CSM_Contig/Conti...   115  3e-26
Contig-U13589-1 (Contig-U13589-1Q) /CSM_Contig/Conti...    40  0.001
Contig-U14873-1 (Contig-U14873-1Q) /CSM_Contig/Conti...    38  0.006
Contig-U07176-1 (Contig-U07176-1Q) /CSM_Contig/Conti...    38  0.006
Contig-U10032-1 (Contig-U10032-1Q) /CSM_Contig/Conti...    36  0.023
Contig-U03296-1 (Contig-U03296-1Q) /CSM_Contig/Conti...    36  0.023
Contig-U14121-1 (Contig-U14121-1Q) /CSM_Contig/Conti...    34  0.092
Contig-U09871-1 (Contig-U09871-1Q) /CSM_Contig/Conti...    34  0.092
Contig-U13944-1 (Contig-U13944-1Q) /CSM_Contig/Conti...    32  0.36
Contig-U13811-1 (Contig-U13811-1Q) /CSM_Contig/Conti...    32  0.36

>Contig-U05739-1 (Contig-U05739-1Q) /CSM_Contig/Contig-U05739-1Q.Seq.d
          Length = 339

 Score =  115 bits (58), Expect = 3e-26
 Identities = 58/58 (100%)
 Strand = Plus / Plus

                                                                    
Query: 1  ttttataactattattacaatgttcctattattataattgagcaaccaatcgatcatc 58
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1  ttttataactattattacaatgttcctattattataattgagcaaccaatcgatcatc 58


 Score = 63.9 bits (32), Expect = 1e-10
 Identities = 32/32 (100%)
 Strand = Plus / Plus

                                           
Query: 235 aaaaaaaagttttacttttcctcacttcaaaa 266
           ||||||||||||||||||||||||||||||||
Sbjct: 235 aaaaaaaagttttacttttcctcacttcaaaa 266


 Score = 60.0 bits (30), Expect = 2e-09
 Identities = 30/30 (100%)
 Strand = Plus / Plus

                                         
Query: 310 cacaaataacatattattttatatatattt 339
           ||||||||||||||||||||||||||||||
Sbjct: 310 cacaaataacatattattttatatatattt 339


 Score = 60.0 bits (30), Expect = 2e-09
 Identities = 48/57 (84%)
 Strand = Plus / Plus

                                                                    
Query: 113 tgaccctttataaatttaaatatctaaaaannnnnnnnngatttcttcgagcaagcc 169
           ||||||||||||||||||||||||||||||         ||||||||||||||||||
Sbjct: 113 tgaccctttataaatttaaatatctaaaaatttttttttgatttcttcgagcaagcc 169


 Score = 28.2 bits (14), Expect = 5.7
 Identities = 14/14 (100%)
 Strand = Plus / Plus

                         
Query: 326 ttttatatatattt 339
           ||||||||||||||
Sbjct: 289 ttttatatatattt 302


>Contig-U13589-1 (Contig-U13589-1Q) /CSM_Contig/Contig-U13589-1Q.Seq.d
          Length = 639

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

                               
Query: 123 taaatttaaatatctaaaaa 142
           ||||||||||||||||||||
Sbjct: 409 taaatttaaatatctaaaaa 390


>Contig-U14873-1 (Contig-U14873-1Q) /CSM_Contig/Contig-U14873-1Q.Seq.d
          Length = 399

 Score = 38.2 bits (19), Expect = 0.006
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 321 tattattttatatatattt 339
           |||||||||||||||||||
Sbjct: 97  tattattttatatatattt 115


  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: 4861
Number of Sequences: 6905
Number of extensions: 4861
Number of successful extensions: 702
Number of sequences better than 10.0: 205
length of query: 339
length of database: 5,674,871
effective HSP length: 15
effective length of query: 324
effective length of database: 5,571,296
effective search space: 1805099904
effective search space used: 1805099904
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. 8. 3
Homology vs DNA 
Query= Contig-U05739-1 (Contig-U05739-1Q) /CSM_Contig/Contig-U05739-1Q.Seq.d
         (339 letters)

Database: ddbj_B
           105,743,758 sequences; 104,622,809,269 total letters

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

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

(AU074524) Dictyostelium discoideum slug cDNA, clone SSL207.      115   9e-38  3
(AC114263) Dictyostelium discoideum chromosome 2 map 215673-...    46   5e-09  4
(CP001186) Bacillus cereus G9842, complete genome.                 46   0.86   1
(AX346177) Sequence 1248 from Patent WO0200928.                    44   3.4    1
(CE773200) tigr-gss-dog-17000330618529 Dog Library Canis lup...    44   3.4    1
(CE750409) tigr-gss-dog-17000369601142 Dog Library Canis lup...    44   3.4    1
(CE582265) tigr-gss-dog-17000366278639 Dog Library Canis lup...    44   3.4    1
(CE579973) tigr-gss-dog-17000366240236 Dog Library Canis lup...    44   3.4    1
(CE561027) tigr-gss-dog-17000327490957 Dog Library Canis lup...    44   3.4    1
(CE533398) tigr-gss-dog-17000365895278 Dog Library Canis lup...    44   3.4    1
(CE458685) tigr-gss-dog-17000320616304 Dog Library Canis lup...    44   3.4    1
(CE371134) tigr-gss-dog-17000362059872 Dog Library Canis lup...    44   3.4    1
(CE269344) tigr-gss-dog-17000359933566 Dog Library Canis lup...    44   3.4    1
(CE250501) tigr-gss-dog-17000335870240 Dog Library Canis lup...    44   3.4    1
(CE217853) tigr-gss-dog-17000326875778 Dog Library Canis lup...    44   3.4    1
(CE201649) tigr-gss-dog-17000372234359 Dog Library Canis lup...    44   3.4    1
(CE152638) tigr-gss-dog-17000371347389 Dog Library Canis lup...    44   3.4    1
(CE110719) tigr-gss-dog-17000324529813 Dog Library Canis lup...    44   3.4    1
(CE078270) tigr-gss-dog-17000324460250 Dog Library Canis lup...    44   3.4    1
(BH578963) BOHFL84TR BOHF Brassica oleracea genomic clone BO...    44   3.4    1
(AX348713) Sequence 171 from Patent WO0202807.                     34   6.2    2
(AX346118) Sequence 1189 from Patent WO0200928.                    34   6.2    2
(AX344752) Sequence 177 from Patent WO0200927.                     34   6.2    2
(AX344302) Sequence 149 from Patent WO0200926.                     34   6.2    2
(EX643364) 256650354 Pea aphid whole body normalized full le...    32   8.6    2
(FF304892) 279360672 Pea aphid whole body normalized full le...    32   8.6    2

>(AU074524) Dictyostelium discoideum slug cDNA, clone SSL207.
          Length = 240

 Score =  115 bits (58), Expect(3) = 9e-38
 Identities = 58/58 (100%)
 Strand = Plus / Plus


Query: 1  ttttataactattattacaatgttcctattattataattgagcaaccaatcgatcatc 58
          ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1  ttttataactattattacaatgttcctattattataattgagcaaccaatcgatcatc 58

 Score = 60.0 bits (30), Expect(3) = 9e-38
 Identities = 30/30 (100%)
 Strand = Plus / Plus


Query: 113 tgaccctttataaatttaaatatctaaaaa 142
           ||||||||||||||||||||||||||||||
Sbjct: 113 tgaccctttataaatttaaatatctaaaaa 142

 Score = 36.2 bits (18), Expect(3) = 9e-38
 Identities = 18/18 (100%)
 Strand = Plus / Plus


Query: 152 gatttcttcgagcaagcc 169
           ||||||||||||||||||
Sbjct: 152 gatttcttcgagcaagcc 169

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 105743758
Number of Hits to DB: 127,462,920
Number of extensions: 8381227
Number of successful extensions: 734624
Number of sequences better than 10.0: 26
Length of query: 339
Length of database: 104,622,809,269
Length adjustment: 23
Effective length of query: 316
Effective length of database: 102,190,702,835
Effective search space: 32292262095860
Effective search space used: 32292262095860
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 6.20
Homology vs Protein 
Query= Contig-U05739-1 (Contig-U05739-1Q) /CSM_Contig/Contig-U05739-1Q.Seq.d
         (339 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: 153,956,093
Number of extensions: 804089
Number of successful extensions: 310
Number of sequences better than 10.0: 0
Number of HSP's gapped: 310
Number of HSP's successfully gapped: 0
Length of query: 113
Length of database: 1,040,966,779
Length adjustment: 80
Effective length of query: 33
Effective length of database: 784,623,979
Effective search space: 25892591307
Effective search space used: 25892591307
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: 0.28  gvh: 0.42  alm: 0.28  top: 0.30  tms: 0.07  mit: 0.25  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: 1.00  tyr: 0.24  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 : 1.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 20.0 %: cytoplasmic
	 20.0 %: mitochondrial
	 20.0 %: nuclear
	 16.0 %: endoplasmic reticulum
	 12.0 %: Golgi
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system
	  4.0 %: peroxisomal

>> prediction for Contig-U05739-1 is cyt
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