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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-U00979-1
Contig ID Contig-U00979-1
Contig update 2001. 8.29
Contig sequence 
>Contig-U00979-1 (Contig-U00979-1Q) /CSM_Contig/Contig-U00979-1Q.Seq.d
GGTTNCAAAAAAAATGAGTGACTTTTTTGNTCNCNTTTTATTTANAAACN
TTGGTAATTCNANAACNANGANAGATCTTNTTTCATATTTTAATAAAACN
AAACCCAAANATAANAATTTTTTTAATGAACNAANAAATTCNAGTAAAAT
CNAAAGAGNTTATGATATTACCNATGNTNTAAGNCCNTTAGGTCTAATCC
GNAAAAC
Gap no gap
Contig length 207
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 U00979
List of clone(s) 

est1=SFG616Z,1,208
Translated Amino Acid sequence 
VXKKMSDFFXXXLFXNXGNSXTXXDLXSYFNKTKPKXXNFFNEXXNSSKIXRXYDITXXX
XPLGLIRK
Translated Amino Acid sequence (All Frames) 
Frame A:
gxkkne*lfxsxfixkxw*fxnxxrsxfif**nxtqx*xff**txkfx*nxkxl*yyxxx
kxxrsnpxn


Frame B:
VXKKMSDFFXXXLFXNXGNSXTXXDLXSYFNKTKPKXXNFFNEXXNSSKIXRXYDITXXX
XPLGLIRK


Frame C:
xqkk*vtflxxfylxtlvixxxxxixfhilikxnpxixiflmnxxixvkskexmilpmx*
xx*v*sxk
own update 2004. 6. 7
Homology vs CSM-cDNA 
Query= Contig-U00979-1 (Contig-U00979-1Q)
/CSM_Contig/Contig-U00979-1Q.Seq.d
         (207 letters)

Database: CSM
           8361 sequences; 7,895,291 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U00979-1 (Contig-U00979-1Q) /CSM_Contig/Conti...   192  1e-49
Contig-U13190-1 (Contig-U13190-1Q) /CSM_Contig/Conti...    32  0.30
Contig-U01857-1 (Contig-U01857-1Q) /CSM_Contig/Conti...    32  0.30
Contig-U14293-1 (Contig-U14293-1Q) /CSM_Contig/Conti...    30  1.2
Contig-U10812-1 (Contig-U10812-1Q) /CSM_Contig/Conti...    30  1.2
Contig-U08641-1 (Contig-U08641-1Q) /CSM_Contig/Conti...    30  1.2
Contig-U05497-1 (Contig-U05497-1Q) /CSM_Contig/Conti...    30  1.2
Contig-U13926-1 (Contig-U13926-1Q) /CSM_Contig/Conti...    28  4.7

>Contig-U00979-1 (Contig-U00979-1Q) /CSM_Contig/Contig-U00979-1Q.Seq.d
          Length = 207

 Score =  192 bits (97), Expect = 1e-49
 Identities = 186/193 (96%)
 Strand = Plus / Plus

                                                                       
Query: 15  tgagtgacttttttgntcncnttttatttanaaacnttggtaattcnanaacnanganag 74
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15  tgagtgacttttttgntcncnttttatttanaaacnttggtaattcnanaacnanganag 74

                                                                       
Query: 75  atcttntttcatattttaataaaacnaaacccaaanataanaannnnnnnaatgaacnaa 134
           |||||||||||||||||||||||||||||||||||||||||||       ||||||||||
Sbjct: 75  atcttntttcatattttaataaaacnaaacccaaanataanaatttttttaatgaacnaa 134

                                                                       
Query: 135 naaattcnagtaaaatcnaaagagnttatgatattaccnatgntntaagnccnttaggtc 194
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 135 naaattcnagtaaaatcnaaagagnttatgatattaccnatgntntaagnccnttaggtc 194

                        
Query: 195 taatccgnaaaac 207
           |||||||||||||
Sbjct: 195 taatccgnaaaac 207


>Contig-U13190-1 (Contig-U13190-1Q) /CSM_Contig/Contig-U13190-1Q.Seq.d
          Length = 1421

 Score = 32.2 bits (16), Expect = 0.30
 Identities = 16/16 (100%)
 Strand = Plus / Minus

                           
Query: 82  ttcatattttaataaa 97
           ||||||||||||||||
Sbjct: 160 ttcatattttaataaa 145


>Contig-U01857-1 (Contig-U01857-1Q) /CSM_Contig/Contig-U01857-1Q.Seq.d
          Length = 1261

 Score = 32.2 bits (16), Expect = 0.30
 Identities = 18/19 (94%)
 Strand = Plus / Plus

                              
Query: 87  attttaataaaacnaaacc 105
           ||||||||||||| |||||
Sbjct: 360 attttaataaaacaaaacc 378


  Database: CSM
    Posted date:  Jun 7, 2004  8:33 AM
  Number of letters in database: 7,895,291
  Number of sequences in database:  8361
  
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: 1081
Number of Sequences: 8361
Number of extensions: 1081
Number of successful extensions: 305
Number of sequences better than 10.0: 29
length of query: 207
length of database: 7,895,291
effective HSP length: 15
effective length of query: 192
effective length of database: 7,769,876
effective search space: 1491816192
effective search space used: 1491816192
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. 4.20
Homology vs DNA 
Query= Contig-U00979-1 (Contig-U00979-1Q) /CSM_Contig/Contig-U00979-1Q.Seq.d
         (207 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

(BJ400658) Dictyostelium discoideum cDNA clone:dds14o04, 3' ...   121   1e-47  2
(GM043533) Sequence 172 from Patent WO2006133866.                  42   7.6    1

>(BJ400658) Dictyostelium discoideum cDNA clone:dds14o04, 3' end,
           single read.
          Length = 208

 Score =  121 bits (61), Expect(2) = 1e-47
 Identities = 100/100 (100%)
 Strand = Plus / Minus


Query: 15  tgagtgacttttttgntcncnttttatttanaaacnttggtaattcnanaacnanganag 74
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 194 tgagtgacttttttgntcncnttttatttanaaacnttggtaattcnanaacnanganag 135


Query: 75  atcttntttcatattttaataaaacnaaacccaaanataa 114
           ||||||||||||||||||||||||||||||||||||||||
Sbjct: 134 atcttntttcatattttaataaaacnaaacccaaanataa 95

 Score = 99.6 bits (50), Expect(2) = 1e-47
 Identities = 83/83 (100%)
 Strand = Plus / Minus


Query: 125 aatgaacnaanaaattcnagtaaaatcnaaagagnttatgatattaccnatgntntaagn 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 84  aatgaacnaanaaattcnagtaaaatcnaaagagnttatgatattaccnatgntntaagn 25


Query: 185 ccnttaggtctaatccgnaaaac 207
           |||||||||||||||||||||||
Sbjct: 24  ccnttaggtctaatccgnaaaac 2

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 83,432,390
Number of extensions: 5324551
Number of successful extensions: 1093489
Number of sequences better than 10.0: 2
Length of query: 207
Length of database: 101,790,757,118
Length adjustment: 23
Effective length of query: 184
Effective length of database: 99,442,330,388
Effective search space: 18297388791392
Effective search space used: 18297388791392
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.14
Homology vs Protein 
Query= Contig-U00979-1 (Contig-U00979-1Q) /CSM_Contig/Contig-U00979-1Q.Seq.d
         (207 letters)

Database: nrp_B
           3,236,559 sequences; 1,051,180,864 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: 3236559
Number of Hits to DB: 121,499,816
Number of extensions: 1736423
Number of successful extensions: 138
Number of sequences better than 10.0: 0
Number of HSP's gapped: 138
Number of HSP's successfully gapped: 0
Length of query: 69
Length of database: 1,051,180,864
Length adjustment: 41
Effective length of query: 28
Effective length of database: 918,481,945
Effective search space: 25717494460
Effective search space used: 25717494460
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: 26 (14.6 bits)
PSORT 

 psg: 0.90  gvh: 0.55  alm: 0.55  top: 0.33  tms: 0.00  mit: 0.27  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 

	 36.0 %: nuclear
	 28.0 %: cytoplasmic
	 20.0 %: extracellular, including cell wall
	  4.0 %: mitochondrial
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system
	  4.0 %: endoplasmic reticulum

>> prediction for Contig-U00979-1 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) 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