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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-U14796-1
Contig ID Contig-U14796-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14796-1 (Contig-U14796-1Q) /CSM_Contig/Contig-U14796-1Q.Seq.d
NNNNNNNNNNTCCCNAAAANCCCCCCCCCCCNAAAAAAAAAAAAAAAAAA
AAAAAATAATAAAAATAATAAAAATAAAAATAATAAAAAATAATTAAAAA
ATACGTATCAGATATTTTTTTTTGTTTTTTTAGATCAAATTTAAAAGTGA
CGAACCATTAATTTACATGGGATAATTAAACAAATATCAGTAGTGTTGGA
TTGGTTATTTGCTTCCACTTTTGCTTTCANGGAGCTCAGATATATCAC
Gap no gap
Contig length 248
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 5052932
End point 5052714
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U14796
List of clone(s) 

est1=VHF656Z,1,239
Translated Amino Acid sequence 
xxxxpkxpppxkkkkkkknnknnknknnkk*lkntyqifffvfldqi*k*RTINLHGIIK
QISVVLDWLFASTFAFXELRYI
Translated Amino Acid sequence (All Frames) 
Frame A:
xxxxpkxpppxkkkkkkknnknnknknnkk*lkntyqifffvfldqi*k*RTINLHGIIK
QISVVLDWLFASTFAFXELRYI


Frame B:
xxxsxkxpppxkkkkkkkiikiikikiiknn*kiriryfflff*ikfksdepliymg*ln
kyq*cwigyllplllsxssdis


Frame C:
xxxpxxppppkkkkkkkk**k**k*k**kiikkyvsdiffcffrsnlkvtnh*ftwdn*t
nissvglvicfhfcfxgaqiyh
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14796-1 (Contig-U14796-1Q)
/CSM_Contig/Contig-U14796-1Q.Seq.d
         (248 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14796-1 (Contig-U14796-1Q) /CSM_Contig/Conti...   226  9e-60
Contig-U13959-1 (Contig-U13959-1Q) /CSM_Contig/Conti...    32  0.26
Contig-U09515-1 (Contig-U09515-1Q) /CSM_Contig/Conti...    32  0.26
Contig-U00451-1 (Contig-U00451-1Q) /CSM_Contig/Conti...    32  0.26
Contig-U14703-1 (Contig-U14703-1Q) /CSM_Contig/Conti...    30  1.0
Contig-U14321-1 (Contig-U14321-1Q) /CSM_Contig/Conti...    28  4.1
Contig-U13893-1 (Contig-U13893-1Q) /CSM_Contig/Conti...    28  4.1
Contig-U13869-1 (Contig-U13869-1Q) /CSM_Contig/Conti...    28  4.1
Contig-U13236-1 (Contig-U13236-1Q) /CSM_Contig/Conti...    28  4.1
Contig-U13021-1 (Contig-U13021-1Q) /CSM_Contig/Conti...    28  4.1

>Contig-U14796-1 (Contig-U14796-1Q) /CSM_Contig/Contig-U14796-1Q.Seq.d
          Length = 248

 Score =  226 bits (114), Expect = 9e-60
 Identities = 117/117 (100%)
 Strand = Plus / Plus

                                                                       
Query: 132 agatcaaatttaaaagtgacgaaccattaatttacatgggataattaaacaaatatcagt 191
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 132 agatcaaatttaaaagtgacgaaccattaatttacatgggataattaaacaaatatcagt 191

                                                                    
Query: 192 agtgttggattggttatttgcttccacttttgctttcanggagctcagatatatcac 248
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 192 agtgttggattggttatttgcttccacttttgctttcanggagctcagatatatcac 248


 Score = 30.2 bits (15), Expect = 1.0
 Identities = 21/21 (100%)
 Strand = Plus / Plus

                               
Query: 11 tcccnaaaanccccccccccc 31
          |||||||||||||||||||||
Sbjct: 11 tcccnaaaanccccccccccc 31


>Contig-U13959-1 (Contig-U13959-1Q) /CSM_Contig/Contig-U13959-1Q.Seq.d
          Length = 682

 Score = 32.2 bits (16), Expect = 0.26
 Identities = 16/16 (100%)
 Strand = Plus / Minus

                           
Query: 174 aattaaacaaatatca 189
           ||||||||||||||||
Sbjct: 230 aattaaacaaatatca 215


>Contig-U09515-1 (Contig-U09515-1Q) /CSM_Contig/Contig-U09515-1Q.Seq.d
          Length = 1213

 Score = 32.2 bits (16), Expect = 0.26
 Identities = 16/16 (100%)
 Strand = Plus / Minus

                            
Query: 133  gatcaaatttaaaagt 148
            ||||||||||||||||
Sbjct: 1168 gatcaaatttaaaagt 1153


  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: 1596
Number of Sequences: 6905
Number of extensions: 1596
Number of successful extensions: 428
Number of sequences better than 10.0: 29
length of query: 248
length of database: 5,674,871
effective HSP length: 15
effective length of query: 233
effective length of database: 5,571,296
effective search space: 1298111968
effective search space used: 1298111968
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. 1
Homology vs DNA 
Query= Contig-U14796-1 (Contig-U14796-1Q) /CSM_Contig/Contig-U14796-1Q.Seq.d
         (248 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

(BJ440121) Dictyostelium discoideum cDNA clone:ddv42o14, 3' ...   226   2e-57  2
(AC116305) Dictyostelium discoideum chromosome 2 map 1005175...   172   4e-39  1
(DU269118) 1098589019347 CHORI-243 Ovis aries genomic clone ...    42   8.8    1
(CL943106) OA_ABa0061H14.r OA_ABa Oryza australiensis genomi...    42   8.8    1

>(BJ440121) Dictyostelium discoideum cDNA clone:ddv42o14, 3' end,
           single read.
          Length = 239

 Score =  226 bits (114), Expect(2) = 2e-57
 Identities = 117/117 (100%)
 Strand = Plus / Minus


Query: 132 agatcaaatttaaaagtgacgaaccattaatttacatgggataattaaacaaatatcagt 191
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 118 agatcaaatttaaaagtgacgaaccattaatttacatgggataattaaacaaatatcagt 59


Query: 192 agtgttggattggttatttgcttccacttttgctttcanggagctcagatatatcac 248
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 58  agtgttggattggttatttgcttccacttttgctttcanggagctcagatatatcac 2

 Score = 30.2 bits (15), Expect(2) = 2e-57
 Identities = 21/21 (100%)
 Strand = Plus / Minus


Query: 11  tcccnaaaanccccccccccc 31
           |||||||||||||||||||||
Sbjct: 239 tcccnaaaanccccccccccc 219

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 160,625,925
Number of extensions: 19835729
Number of successful extensions: 2197737
Number of sequences better than 10.0: 4
Length of query: 248
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 225
Effective length of database: 93,106,754,628
Effective search space: 20949019791300
Effective search space used: 20949019791300
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.12
Homology vs Protein 
Query= Contig-U14796-1 (Contig-U14796-1Q) /CSM_Contig/Contig-U14796-1Q.Seq.d
         (248 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: 231,703,676
Number of extensions: 2672078
Number of successful extensions: 5531
Number of sequences better than 10.0: 0
Number of HSP's gapped: 5531
Number of HSP's successfully gapped: 0
Length of query: 82
Length of database: 1,051,180,864
Length adjustment: 52
Effective length of query: 30
Effective length of database: 882,879,796
Effective search space: 26486393880
Effective search space used: 26486393880
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: 27 (15.0 bits)
PSORT 

 psg: 0.76  gvh: 0.69  alm: 0.39  top: 0.53  tms: 0.00  mit: 0.34  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 

	 40.0 %: cytoplasmic
	 32.0 %: nuclear
	 16.0 %: mitochondrial
	  8.0 %: cytoskeletal
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U14796-1 is cyt
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