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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-U14427-1
Contig ID Contig-U14427-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14427-1 (Contig-U14427-1Q) /CSM_Contig/Contig-U14427-1Q.Seq.d
AAAAAAAACAATTGACACATAAACTGTTGTTAATTAAATTATTATTATTA
TATATAACCAGTAATTGTTTAATAATAATTTTAACTTGATTGTGTAATTT
TTATTTATTTTAAAATTAATTTTTTTTTTTTTNAATNCTTNATTTTTTAA
GTTTNATTTTTTTTNAAAAAAAAANNNNNNNNN
Gap no gap
Contig length 183
Chromosome number (1..6, M) 6
Chromosome length 3595308
Start point 1680723
End point 1680896
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U14427
List of clone(s) 

est1=CHO242F,1,174
Translated Amino Acid sequence 
kktidt*tvvn*iiiiiynq*lfnnnfnliv*FLFILKLIFFFXNXXFFKFXFFXKKXXX
Translated Amino Acid sequence (All Frames) 
Frame A:
kknn*hincc*lnyyyyi*pviv***f*ldcvifiyfkinffffxxxif*vxffxkkkxx
x


Frame B:
kktidt*tvvn*iiiiiynq*lfnnnfnliv*FLFILKLIFFFXNXXFFKFXFFXKKXXX


Frame C:
kkqlthklllikllllyitsncliiilt*lcnfylf*n*ffffxxlxflsxiffxkkxxx
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14427-1 (Contig-U14427-1Q)
/CSM_Contig/Contig-U14427-1Q.Seq.d
         (183 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14427-1 (Contig-U14427-1Q) /CSM_Contig/Conti...   188  1e-48
Contig-U09104-1 (Contig-U09104-1Q) /CSM_Contig/Conti...    42  2e-04
Contig-U14440-1 (Contig-U14440-1Q) /CSM_Contig/Conti...    40  8e-04
Contig-U12146-1 (Contig-U12146-1Q) /CSM_Contig/Conti...    40  8e-04
Contig-U12123-1 (Contig-U12123-1Q) /CSM_Contig/Conti...    40  8e-04
Contig-U09319-1 (Contig-U09319-1Q) /CSM_Contig/Conti...    40  8e-04
Contig-U09239-1 (Contig-U09239-1Q) /CSM_Contig/Conti...    40  8e-04
Contig-U08202-1 (Contig-U08202-1Q) /CSM_Contig/Conti...    40  8e-04
Contig-U01470-1 (Contig-U01470-1Q) /CSM_Contig/Conti...    40  8e-04
Contig-U14901-1 (Contig-U14901-1Q) /CSM_Contig/Conti...    38  0.003

>Contig-U14427-1 (Contig-U14427-1Q) /CSM_Contig/Contig-U14427-1Q.Seq.d
          Length = 183

 Score =  188 bits (95), Expect = 1e-48
 Identities = 95/95 (100%)
 Strand = Plus / Plus

                                                                       
Query: 9   caattgacacataaactgttgttaattaaattattattattatatataaccagtaattgt 68
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9   caattgacacataaactgttgttaattaaattattattattatatataaccagtaattgt 68

                                              
Query: 69  ttaataataattttaacttgattgtgtaattttta 103
           |||||||||||||||||||||||||||||||||||
Sbjct: 69  ttaataataattttaacttgattgtgtaattttta 103


>Contig-U09104-1 (Contig-U09104-1Q) /CSM_Contig/Contig-U09104-1Q.Seq.d
          Length = 1120

 Score = 42.1 bits (21), Expect = 2e-04
 Identities = 21/21 (100%)
 Strand = Plus / Minus

                               
Query: 31 taattaaattattattattat 51
          |||||||||||||||||||||
Sbjct: 58 taattaaattattattattat 38


>Contig-U14440-1 (Contig-U14440-1Q) /CSM_Contig/Contig-U14440-1Q.Seq.d
          Length = 985

 Score = 40.1 bits (20), Expect = 8e-04
 Identities = 20/20 (100%)
 Strand = Plus / Minus

                               
Query: 38  attattattattatatataa 57
           ||||||||||||||||||||
Sbjct: 802 attattattattatatataa 783


 Score = 28.2 bits (14), Expect = 2.9
 Identities = 14/14 (100%)
 Strand = Plus / Minus

                         
Query: 38  attattattattat 51
           ||||||||||||||
Sbjct: 820 attattattattat 807


 Score = 28.2 bits (14), Expect = 2.9
 Identities = 14/14 (100%)
 Strand = Plus / Minus

                         
Query: 38  attattattattat 51
           ||||||||||||||
Sbjct: 805 attattattattat 792


 Score = 28.2 bits (14), Expect = 2.9
 Identities = 14/14 (100%)
 Strand = Plus / Minus

                         
Query: 38  attattattattat 51
           ||||||||||||||
Sbjct: 808 attattattattat 795


 Score = 28.2 bits (14), Expect = 2.9
 Identities = 14/14 (100%)
 Strand = Plus / Minus

                         
Query: 38  attattattattat 51
           ||||||||||||||
Sbjct: 814 attattattattat 801


 Score = 28.2 bits (14), Expect = 2.9
 Identities = 14/14 (100%)
 Strand = Plus / Minus

                         
Query: 38  attattattattat 51
           ||||||||||||||
Sbjct: 811 attattattattat 798


 Score = 28.2 bits (14), Expect = 2.9
 Identities = 14/14 (100%)
 Strand = Plus / Minus

                         
Query: 38  attattattattat 51
           ||||||||||||||
Sbjct: 817 attattattattat 804


  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: 18,665
Number of Sequences: 6905
Number of extensions: 18665
Number of successful extensions: 13123
Number of sequences better than 10.0: 1730
length of query: 183
length of database: 5,674,871
effective HSP length: 15
effective length of query: 168
effective length of database: 5,571,296
effective search space: 935977728
effective search space used: 935977728
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 2008.12.22
Homology vs DNA 
Query= Contig-U14427-1 (Contig-U14427-1Q) /CSM_Contig/Contig-U14427-1Q.Seq.d
         (183 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

(BJ369360) Dictyostelium discoideum cDNA clone:ddc50c12, 5' ...    42   6.3    1

>(BJ369360) Dictyostelium discoideum cDNA clone:ddc50c12, 5' end,
          single read.
          Length = 174

 Score = 42.1 bits (21), Expect = 6.3
 Identities = 21/21 (100%)
 Strand = Plus / Plus


Query: 9  caattgacacataaactgttg 29
          |||||||||||||||||||||
Sbjct: 9  caattgacacataaactgttg 29

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 13,406,618
Number of extensions: 645491
Number of successful extensions: 138554
Number of sequences better than 10.0: 1
Length of query: 183
Length of database: 95,242,211,685
Length adjustment: 22
Effective length of query: 161
Effective length of database: 93,199,600,587
Effective search space: 15005135694507
Effective search space used: 15005135694507
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.11
Homology vs Protein 
Query= Contig-U14427-1 (Contig-U14427-1Q) /CSM_Contig/Contig-U14427-1Q.Seq.d
         (183 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: 57,058,027
Number of extensions: 587816
Number of successful extensions: 12
Number of sequences better than 10.0: 0
Number of HSP's gapped: 12
Number of HSP's successfully gapped: 0
Length of query: 61
Length of database: 1,051,180,864
Length adjustment: 33
Effective length of query: 28
Effective length of database: 944,374,417
Effective search space: 26442483676
Effective search space used: 26442483676
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: 0.88  gvh: 0.55  alm: 0.32  top: 0.60  tms: 0.07  mit: 0.37  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.80  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: 1.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 32.0 %: cytoplasmic
	 24.0 %: mitochondrial
	 20.0 %: nuclear
	  8.0 %: plasma membrane
	  8.0 %: endoplasmic reticulum
	  4.0 %: vesicles of secretory system
	  4.0 %: peroxisomal

>> prediction for Contig-U14427-1 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) 0
CH (FL, L) 1
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0