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Dicty_cDB
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U03475-1
Contig ID Contig-U03475-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U03475-1 (Contig-U03475-1Q) /CSM_Contig/Contig-U03475-1Q.Seq.d
TATTTTNNAGNTAGNAAANANNCNACATGNTTAGGANGGNCNATTAGNTC
CNNTGGATCTTTNAANGNNAATNTAGGNTTAAAAAANNCNAGNCNAACTG
AAANTGNTATTNAATTTNAAACTAGNNCNCCNAAANCAACANANCCCCCC
CAAAAAAANTGGAATTGGNTTTGGGNTTATTAATTATTNAGNNAAAATAA
TAANCAACAACAACNACNACNACNACNACNACNACNACNACAANAANAAN
AATTTCNACNANATGAANAATTTTNCNGNTCNACCCCAAAATTAANTGNN
AANTCCCCNGNTANTTTAANT
Gap no gap
Contig length 321
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 U03475
List of clone(s) 

est1=SFD466Z,1,322
Translated Amino Acid sequence 
ixxxxxxxhx*xgxlxpxdlxxxx*x*KXXXXLKXXXNXKLXXXXQXXPPKKXGIGFGXI
NYXXKIIXNNNXXXXXXXXXXXXNFXXMXNFXXXPQN*xxxpxxx*
Translated Amino Acid sequence (All Frames) 
Frame A:
yfxxxkxxtxlgxxixsxgsxxxnxglkxxxxtexxixfxtxxpkxtxppqkxwnwxwxy
*lxxxnnxqqqxxxxxxxxxqxxxfxxxexfxxstpklxxxspxxlx


Frame B:
ixxxxxxxhx*xgxlxpxdlxxxx*x*KXXXXLKXXXNXKLXXXXQXXPPKKXGIGFGXI
NYXXKIIXNNNXXXXXXXXXXXXNFXXMXNFXXXPQN*xxxpxxx*


Frame C:
fxx*xxxxmxrxxx*xxwifxxxxrxkkxxxn*xxyxixn*xxxxnxxppkkxelxlgll
iixxk**xttttttttttttxxxistx*xixxxxpkixxxxpxxfx
own update 2004. 6. 9
Homology vs CSM-cDNA 
Query= Contig-U03475-1 (Contig-U03475-1Q)
/CSM_Contig/Contig-U03475-1Q.Seq.d
         (321 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U03475-1 (Contig-U03475-1Q) /CSM_Contig/Conti...   121  5e-28

>Contig-U03475-1 (Contig-U03475-1Q) /CSM_Contig/Contig-U03475-1Q.Seq.d
          Length = 321

 Score =  121 bits (61), Expect = 5e-28
 Identities = 160/160 (100%)
 Strand = Plus / Plus

                                                                       
Query: 160 tggaattggntttgggnttattaattattnagnnaaaataataancaacaacaacnacna 219
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 160 tggaattggntttgggnttattaattattnagnnaaaataataancaacaacaacnacna 219

                                                                       
Query: 220 cnacnacnacnacnacnacnacaanaanaanaatttcnacnanatgaanaattttncngn 279
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 220 cnacnacnacnacnacnacnacaanaanaanaatttcnacnanatgaanaattttncngn 279

                                                   
Query: 280 tcnaccccaaaattaantgnnaantccccngntantttaa 319
           ||||||||||||||||||||||||||||||||||||||||
Sbjct: 280 tcnaccccaaaattaantgnnaantccccngntantttaa 319


  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: 320
Number of Sequences: 6905
Number of extensions: 320
Number of successful extensions: 2
Number of sequences better than 10.0: 1
length of query: 321
length of database: 5,674,871
effective HSP length: 15
effective length of query: 306
effective length of database: 5,571,296
effective search space: 1704816576
effective search space used: 1704816576
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. 6. 1
Homology vs DNA 
Query= Contig-U03475-1 (Contig-U03475-1Q) /CSM_Contig/Contig-U03475-1Q.Seq.d
         (321 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

(BJ399800) Dictyostelium discoideum cDNA clone:dds7d18, 3' e...    72   1e-32  3
(BJ402128) Dictyostelium discoideum cDNA clone:dds20g16, 3' ...    70   5e-08  1
(BJ401650) Dictyostelium discoideum cDNA clone:dds23o23, 3' ...    70   5e-08  1

>(BJ399800) Dictyostelium discoideum cDNA clone:dds7d18, 3' end,
           single read.
          Length = 322

 Score = 71.9 bits (36), Expect(3) = 1e-32
 Identities = 117/117 (100%)
 Strand = Plus / Minus


Query: 25  acatgnttagganggncnattagntccnntggatctttnaangnnaatntaggnttaaaa 84
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 298 acatgnttagganggncnattagntccnntggatctttnaangnnaatntaggnttaaaa 239


Query: 85  aanncnagncnaactgaaantgntattnaatttnaaactagnncnccnaaancaaca 141
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 238 aanncnagncnaactgaaantgntattnaatttnaaactagnncnccnaaancaaca 182

 Score = 69.9 bits (35), Expect(3) = 1e-32
 Identities = 53/53 (100%)
 Strand = Plus / Minus


Query: 160 tggaattggntttgggnttattaattattnagnnaaaataataancaacaaca 212
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 163 tggaattggntttgggnttattaattattnagnnaaaataataancaacaaca 111

 Score = 48.1 bits (24), Expect(3) = 1e-32
 Identities = 69/69 (100%)
 Strand = Plus / Minus


Query: 251 aatttcnacnanatgaanaattttncngntcnaccccaaaattaantgnnaantccccng 310
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 72  aatttcnacnanatgaanaattttncngntcnaccccaaaattaantgnnaantccccng 13


Query: 311 ntantttaa 319
           |||||||||
Sbjct: 12  ntantttaa 4

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 58,236,714
Number of extensions: 2710551
Number of successful extensions: 10204
Number of sequences better than 10.0: 3
Length of query: 321
Length of database: 101,790,757,118
Length adjustment: 23
Effective length of query: 298
Effective length of database: 99,442,330,388
Effective search space: 29633814455624
Effective search space used: 29633814455624
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.28
Homology vs Protein 
Query= Contig-U03475-1 (Contig-U03475-1Q) /CSM_Contig/Contig-U03475-1Q.Seq.d
         (321 letters)

Database: nrp_A
           3,268,448 sequences; 1,061,185,681 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: 3268448
Number of Hits to DB: 160,552,788
Number of extensions: 16260751
Number of successful extensions: 432
Number of sequences better than 10.0: 0
Number of HSP's gapped: 432
Number of HSP's successfully gapped: 0
Length of query: 107
Length of database: 1,061,185,681
Length adjustment: 75
Effective length of query: 32
Effective length of database: 816,052,081
Effective search space: 26113666592
Effective search space used: 26113666592
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: 0.64  gvh: 0.43  alm: 0.56  top: 0.53  tms: 0.00  mit: 0.29  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 %: cytoplasmic
	 32.0 %: mitochondrial
	 16.0 %: nuclear
	  8.0 %: cytoskeletal
	  4.0 %: vesicles of secretory system
	  4.0 %: peroxisomal

>> prediction for Contig-U03475-1 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