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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-U14832-1
Contig ID Contig-U14832-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14832-1 (Contig-U14832-1Q) /CSM_Contig/Contig-U14832-1Q.Seq.d
NNNNNNNNNNTCATTTTAGNCAACGTTATCCNAATTTAAAAATGGGNNCA
TATAAAGANACNAATTATGGNTTGGCNATTGATTTACTTNAAATTTNNCC
TTATCAANATCCNTTAGTTTATAAAANGATTGAACCNTTTTTTTTATTAT
TTGAAAANNAAGNTCAAAANAAATTANATNAAAAATNAANTNAACCAACA
ACAACAAGTNAATNAAAATTTTCAAAAACANAANATGAAAATNATACNAT
TGAAAAANATGGTAAAANATTANANAAATATCNAAATNAANATAA
Gap no gap
Contig length 295
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 U14832
List of clone(s) 

est1=VHJ757Z,1,286
Translated Amino Acid sequence 
XXXHFXQRYPNLKMGXYKXTNYGLAIDLLXIXPYQXPLVYKXIEPFFLLFEXXXQXKLXX
KXXXPTTTSXXKFSKTXXENXTIEKXGKXLXKYXNXX
Translated Amino Acid sequence (All Frames) 
Frame A:
xxxxilxnvixi*kwxhikxximxwxliyxkfxlixix*fikxlnxffyylkxkxkxnxx
knxxnqqqqvnxnfqkxxmkxixlkxmvkxxxnixxxi


Frame B:
xxxsf*xtlsxfkngxi*rxxlwxgx*ftxnxxlsxsxsl*xd*txffii*kxxskxixx
kxxxtnnnkxxkifknxx*kxyx*kxw*xixxiskxx*


Frame C:
XXXHFXQRYPNLKMGXYKXTNYGLAIDLLXIXPYQXPLVYKXIEPFFLLFEXXXQXKLXX
KXXXPTTTSXXKFSKTXXENXTIEKXGKXLXKYXNXX
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14832-1 (Contig-U14832-1Q)
/CSM_Contig/Contig-U14832-1Q.Seq.d
         (295 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14832-1 (Contig-U14832-1Q) /CSM_Contig/Conti...   202  2e-52
Contig-U14334-1 (Contig-U14334-1Q) /CSM_Contig/Conti...   202  2e-52
Contig-U14881-1 (Contig-U14881-1Q) /CSM_Contig/Conti...   149  2e-36
Contig-U14120-1 (Contig-U14120-1Q) /CSM_Contig/Conti...   100  2e-21
Contig-U06847-1 (Contig-U06847-1Q) /CSM_Contig/Conti...    36  0.020
Contig-U14901-1 (Contig-U14901-1Q) /CSM_Contig/Conti...    30  1.2
Contig-U14193-1 (Contig-U14193-1Q) /CSM_Contig/Conti...    30  1.2
Contig-U14059-1 (Contig-U14059-1Q) /CSM_Contig/Conti...    30  1.2
Contig-U13453-1 (Contig-U13453-1Q) /CSM_Contig/Conti...    30  1.2

>Contig-U14832-1 (Contig-U14832-1Q) /CSM_Contig/Contig-U14832-1Q.Seq.d
          Length = 295

 Score =  202 bits (102), Expect = 2e-52
 Identities = 190/198 (95%)
 Strand = Plus / Plus

                                                                       
Query: 11  tcattttagncaacgttatccnaatttaaaaatgggnncatataaaganacnaattatgg 70
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 11  tcattttagncaacgttatccnaatttaaaaatgggnncatataaaganacnaattatgg 70

                                                                       
Query: 71  nttggcnattgatttacttnaaatttnnccttatcaanatccnttagtttataaaangat 130
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71  nttggcnattgatttacttnaaatttnnccttatcaanatccnttagtttataaaangat 130

                                                                       
Query: 131 tgaaccnnnnnnnnnattatttgaaaannaagntcaaaanaaattanatnaaaaatnaan 190
           |||||||        |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 131 tgaaccnttttttttattatttgaaaannaagntcaaaanaaattanatnaaaaatnaan 190

                             
Query: 191 tnaaccaacaacaacaag 208
           ||||||||||||||||||
Sbjct: 191 tnaaccaacaacaacaag 208


>Contig-U14334-1 (Contig-U14334-1Q) /CSM_Contig/Contig-U14334-1Q.Seq.d
          Length = 933

 Score =  202 bits (102), Expect = 2e-52
 Identities = 166/198 (83%)
 Strand = Plus / Plus

                                                                       
Query: 11  tcattttagncaacgttatccnaatttaaaaatgggnncatataaaganacnaattatgg 70
           ||||||||| ||||||||||| ||||||||||||||  |||||||||| || ||||||||
Sbjct: 648 tcattttagtcaacgttatccaaatttaaaaatgggtacatataaagatacaaattatgg 707

                                                                       
Query: 71  nttggcnattgatttacttnaaatttnnccttatcaanatccnttagtttataaaangat 130
            ||||| |||||||||||| ||||||  ||||||||| |||| ||||||||||||| |||
Sbjct: 708 tttggcaattgatttacttcaaatttcaccttatcaatatccattagtttataaaatgat 767

                                                                       
Query: 131 tgaaccnnnnnnnnnattatttgaaaannaagntcaaaanaaattanatnaaaaatnaan 190
           ||||||         ||||||||||||  ||| |||||| |||||| || |||||| || 
Sbjct: 768 tgaaccattttctttattatttgaaaatgaagctcaaaagaaattagataaaaaatcaac 827

                             
Query: 191 tnaaccaacaacaacaag 208
           | ||||||||||||||||
Sbjct: 828 tcaaccaacaacaacaag 845


>Contig-U14881-1 (Contig-U14881-1Q) /CSM_Contig/Contig-U14881-1Q.Seq.d
          Length = 292

 Score =  149 bits (75), Expect = 2e-36
 Identities = 168/180 (93%)
 Strand = Plus / Plus

                                                                       
Query: 29  tccnaatttaaaaatgggnncatataaaganacnaattatggnttggcnattgatttact 88
           |||||||||||||||||||||||||||| ||||||||||||||||||||| ||||||| |
Sbjct: 11  tccnaatttaaaaatgggnncatataaananacnaattatggnttggcnantgatttant 70

                                                                       
Query: 89  tnaaatttnnccttatcaanatccnttagtttataaaangattgaaccnnnnnnnnnatt 148
           ||||||||||||||||||||||||||||| |||||||||||||||||||        |||
Sbjct: 71  tnaaatttnnccttatcaanatccnttagnttataaaangattgaaccnttttttttatt 130

                                                                       
Query: 149 atttgaaaannaagntcaaaanaaattanatnaaaaatnaantnaaccaacaacaacaag 208
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 131 atttgaaaannaagntcaaaanaaattanatnaaaaatnaantnaaccaacaacaacaag 190


  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: 7313
Number of Sequences: 6905
Number of extensions: 7313
Number of successful extensions: 5335
Number of sequences better than 10.0: 118
length of query: 295
length of database: 5,674,871
effective HSP length: 15
effective length of query: 280
effective length of database: 5,571,296
effective search space: 1559962880
effective search space used: 1559962880
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. 1. 3
Homology vs DNA 
Query= Contig-U14832-1 (Contig-U14832-1Q) /CSM_Contig/Contig-U14832-1Q.Seq.d
         (295 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

(BJ441245) Dictyostelium discoideum cDNA clone:ddv46k01, 3' ...   167   1e-42  2
(BJ440789) Dictyostelium discoideum cDNA clone:ddv44a23, 3' ...   167   1e-42  2
(BJ442312) Dictyostelium discoideum cDNA clone:ddv49a18, 3' ...   167   1e-42  2
(BJ442631) Dictyostelium discoideum cDNA clone:ddv50b15, 3' ...   167   1e-42  2
(BJ445631) Dictyostelium discoideum cDNA clone:ddv60j03, 3' ...   113   1e-26  2
(BJ437123) Dictyostelium discoideum cDNA clone:ddv33d08, 3' ...   119   6e-23  1
(BJ355095) Dictyostelium discoideum cDNA clone:dda55a22, 3' ...    82   1e-11  1
(BJ446196) Dictyostelium discoideum cDNA clone:ddv61p23, 3' ...    72   1e-08  1
(BJ384599) Dictyostelium discoideum cDNA clone:ddc50e04, 3' ...    72   1e-08  1

>(BJ441245) Dictyostelium discoideum cDNA clone:ddv46k01, 3' end,
           single read.
          Length = 601

 Score =  167 bits (84), Expect(2) = 1e-42
 Identities = 112/126 (88%)
 Strand = Plus / Minus


Query: 11  tcattttagncaacgttatccnaatttaaaaatgggnncatataaaganacnaattatgg 70
           ||||||||| ||||||||||| ||||||||||||||  |||||||||| || ||||||||
Sbjct: 261 tcattttagtcaacgttatccaaatttaaaaatgggtacatataaagatacaaattatgg 202


Query: 71  nttggcnattgatttacttnaaatttnnccttatcaanatccnttagtttataaaangat 130
            ||||| |||||||||||| ||||||  ||||||||| |||| ||||||||||||| |||
Sbjct: 201 tttggcaattgatttacttcaaatttcaccttatcaatatccattagtttataaaatgat 142


Query: 131 tgaacc 136
           ||||||
Sbjct: 141 tgaacc 136

 Score = 38.2 bits (19), Expect(2) = 1e-42
 Identities = 27/31 (87%)
 Strand = Plus / Minus


Query: 146 attatttgaaaannaagntcaaaanaaatta 176
           ||||||||||||  ||| |||||| ||||||
Sbjct: 126 attatttgaaaatgaagctcaaaagaaatta 96

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 71,958,972
Number of extensions: 4302512
Number of successful extensions: 73132
Number of sequences better than 10.0: 9
Length of query: 295
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 272
Effective length of database: 93,106,754,628
Effective search space: 25325037258816
Effective search space used: 25325037258816
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.12
Homology vs Protein 
Query= Contig-U14832-1 (Contig-U14832-1Q) /CSM_Contig/Contig-U14832-1Q.Seq.d
         (295 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: 136,893,469
Number of extensions: 3021830
Number of successful extensions: 654
Number of sequences better than 10.0: 0
Number of HSP's gapped: 654
Number of HSP's successfully gapped: 0
Length of query: 98
Length of database: 1,051,180,864
Length adjustment: 67
Effective length of query: 31
Effective length of database: 834,331,411
Effective search space: 25864273741
Effective search space used: 25864273741
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: 0.66  gvh: 0.45  alm: 0.45  top: 0.53  tms: 0.00  mit: 0.32  mip: 0.02
 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 

	 40.0 %: nuclear
	 32.0 %: cytoplasmic
	 16.0 %: mitochondrial
	  4.0 %: vacuolar
	  4.0 %: plasma membrane
	  4.0 %: peroxisomal

>> prediction for Contig-U14832-1 is nuc
VS (DIR, S) 0
VH (FL, L) 1
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) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0