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Dicty_cDB
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U08438-1
Contig ID Contig-U08438-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U08438-1 (Contig-U08438-1Q) /CSM_Contig/Contig-U08438-1Q.Seq.d
NNNNNNNNNNAAAGNTTTTTTTTTTTNTTTTTAAAAAAAAAAAAATAGTA
AGATTATTTATAATAATAATAANAATAATAATAAAAATCATTATAGATAA
CCAANAAAAAA
Gap no gap
Contig length 111
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 U08438
List of clone(s) 

est1=SFI585Z,1,102
Translated Amino Acid sequence 
XXXKXFFFXFKKKKIVRLFIIIIXIIIKIIIDNQXK
Translated Amino Acid sequence (All Frames) 
Frame A:
xxxxxfffxflkkkk**dyl****x***ksl*itxkk


Frame B:
xxxkxfffxf*kkknskiiynnnxnnnknhyr*pxk


Frame C:
XXXKXFFFXFKKKKIVRLFIIIIXIIIKIIIDNQXK
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U08438-1 (Contig-U08438-1Q)
/CSM_Contig/Contig-U08438-1Q.Seq.d
         (111 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14622-1 (Contig-U14622-1Q) /CSM_Contig/Conti...    32  0.11
Contig-U14166-1 (Contig-U14166-1Q) /CSM_Contig/Conti...    32  0.11
Contig-U14090-1 (Contig-U14090-1Q) /CSM_Contig/Conti...    32  0.11
Contig-U14026-1 (Contig-U14026-1Q) /CSM_Contig/Conti...    32  0.11
Contig-U13850-1 (Contig-U13850-1Q) /CSM_Contig/Conti...    32  0.11
Contig-U14649-1 (Contig-U14649-1Q) /CSM_Contig/Conti...    28  1.7
Contig-U14550-1 (Contig-U14550-1Q) /CSM_Contig/Conti...    28  1.7
Contig-U14432-1 (Contig-U14432-1Q) /CSM_Contig/Conti...    28  1.7
Contig-U14424-1 (Contig-U14424-1Q) /CSM_Contig/Conti...    28  1.7
Contig-U13757-1 (Contig-U13757-1Q) /CSM_Contig/Conti...    28  1.7

>Contig-U14622-1 (Contig-U14622-1Q) /CSM_Contig/Contig-U14622-1Q.Seq.d
          Length = 149

 Score = 32.2 bits (16), Expect = 0.11
 Identities = 21/22 (95%)
 Strand = Plus / Minus

                                
Query: 11 aaagntttttttttttnttttt 32
          |||||||||||||||| |||||
Sbjct: 87 aaagntttttttttttattttt 66


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                            
Query: 16  tttttttttttnttttt 32
           ||||||||||| |||||
Sbjct: 136 ttttttttttttttttt 120


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Plus

                            
Query: 16  tttttttttttnttttt 32
           ||||||||||| |||||
Sbjct: 85  ttttttttttttttttt 101


 Score = 26.3 bits (13), Expect = 6.7
 Identities = 15/16 (93%)
 Strand = Plus / Minus

                           
Query: 16  tttttttttttntttt 31
           ||||||||||| ||||
Sbjct: 135 tttttttttttttttt 120


>Contig-U14166-1 (Contig-U14166-1Q) /CSM_Contig/Contig-U14166-1Q.Seq.d
          Length = 1491

 Score = 32.2 bits (16), Expect = 0.11
 Identities = 20/22 (90%)
 Strand = Plus / Minus

                                  
Query: 11   aaagntttttttttttnttttt 32
            |||| ||||||||||| |||||
Sbjct: 1451 aaagattttttttttttttttt 1430


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1489 ttttttttttttttttt 1473


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1487 ttttttttttttttttt 1471


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1488 ttttttttttttttttt 1472


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1445 ttttttttttttttttt 1429


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1444 ttttttttttttttttt 1428


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1442 ttttttttttttttttt 1426


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1486 ttttttttttttttttt 1470


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1485 ttttttttttttttttt 1469


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1484 ttttttttttttttttt 1468


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1491 ttttttttttttttttt 1475


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1443 ttttttttttttttttt 1427


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1483 ttttttttttttttttt 1467


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1482 ttttttttttttttttt 1466


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1490 ttttttttttttttttt 1474


>Contig-U14090-1 (Contig-U14090-1Q) /CSM_Contig/Contig-U14090-1Q.Seq.d
          Length = 1099

 Score = 32.2 bits (16), Expect = 0.11
 Identities = 20/22 (90%)
 Strand = Plus / Minus

                                 
Query: 11  aaagntttttttttttnttttt 32
           |||| ||||||||||| |||||
Sbjct: 979 aaagtttttttttttttttttt 958


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1070 ttttttttttttttttt 1054


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1069 ttttttttttttttttt 1053


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                            
Query: 16  tttttttttttnttttt 32
           ||||||||||| |||||
Sbjct: 973 ttttttttttttttttt 957


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                            
Query: 16  tttttttttttnttttt 32
           ||||||||||| |||||
Sbjct: 972 ttttttttttttttttt 956


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1075 ttttttttttttttttt 1059


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1062 ttttttttttttttttt 1046


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1073 ttttttttttttttttt 1057


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1067 ttttttttttttttttt 1051


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1074 ttttttttttttttttt 1058


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1076 ttttttttttttttttt 1060


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1064 ttttttttttttttttt 1048


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1068 ttttttttttttttttt 1052


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1066 ttttttttttttttttt 1050


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                           
Query: 16 tttttttttttnttttt 32
          ||||||||||| |||||
Sbjct: 65 ttttttttttttttttt 49


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1063 ttttttttttttttttt 1047


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1072 ttttttttttttttttt 1056


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1065 ttttttttttttttttt 1049


 Score = 28.2 bits (14), Expect = 1.7
 Identities = 16/17 (94%)
 Strand = Plus / Minus

                             
Query: 16   tttttttttttnttttt 32
            ||||||||||| |||||
Sbjct: 1071 ttttttttttttttttt 1055


  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: 65,192
Number of Sequences: 6905
Number of extensions: 65192
Number of successful extensions: 45437
Number of sequences better than 10.0: 2275
length of query: 111
length of database: 5,674,871
effective HSP length: 14
effective length of query: 97
effective length of database: 5,578,201
effective search space: 541085497
effective search space used: 541085497
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 13 (26.3 bits)
dna update 2008.11.13
Homology vs DNA 
Query= Contig-U08438-1 (Contig-U08438-1Q) /CSM_Contig/Contig-U08438-1Q.Seq.d
         (111 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

(BJ402963) Dictyostelium discoideum cDNA clone:dds18i21, 3' ...    48   5e-05  2

>(BJ402963) Dictyostelium discoideum cDNA clone:dds18i21, 3' end,
           single read.
          Length = 102

 Score = 48.1 bits (24), Expect(2) = 5e-05
 Identities = 27/27 (100%)
 Strand = Plus / Minus


Query: 85  aaatcattatagataaccaanaaaaaa 111
           |||||||||||||||||||||||||||
Sbjct: 28  aaatcattatagataaccaanaaaaaa 2

 Score = 28.2 bits (14), Expect(2) = 5e-05
 Identities = 14/14 (100%)
 Strand = Plus / Minus


Query: 46 tagtaagattattt 59
          ||||||||||||||
Sbjct: 67 tagtaagattattt 54

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 20,884,433
Number of extensions: 1235845
Number of successful extensions: 165024
Number of sequences better than 10.0: 1
Length of query: 111
Length of database: 95,242,211,685
Length adjustment: 22
Effective length of query: 89
Effective length of database: 93,199,600,587
Effective search space: 8294764452243
Effective search space used: 8294764452243
X1: 11 (21.8 bits)
S2: 20 (40.1 bits)
protein update 2009. 6.24
Homology vs Protein 
Query= Contig-U08438-1 (Contig-U08438-1Q) /CSM_Contig/Contig-U08438-1Q.Seq.d
         (111 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: 31,083,806
Number of extensions: 660803
Number of successful extensions: 7
Number of sequences better than 10.0: 0
Number of HSP's gapped: 7
Number of HSP's successfully gapped: 0
Length of query: 37
Length of database: 1,040,966,779
Length adjustment: 11
Effective length of query: 26
Effective length of database: 1,005,719,644
Effective search space: 26148710744
Effective search space used: 26148710744
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: 24 (13.9 bits)
PSORT 

 psg: 0.85  gvh: 0.26  alm: 0.13  top: 0.13  tms: 0.07  mit: 0.31  mip: 0.00
 nuc: 0.16  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: 0.00  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 : 1.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 20.0 %: cytoplasmic
	 20.0 %: nuclear
	 20.0 %: endoplasmic reticulum
	 20.0 %: mitochondrial
	  8.0 %: Golgi
	  4.0 %: extracellular, including cell wall
	  4.0 %: plasma membrane
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U08438-1 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) 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