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Dicty_cDB
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
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Contig-U13047-1
Contig ID Contig-U13047-1
Contig update 2002.12.18
Contig sequence 
>Contig-U13047-1 (Contig-U13047-1Q) /CSM_Contig/Contig-U13047-1Q.Seq.d
NNNNNNNNNNCAAAGNCAAANAAANCNTTGGAANANTTTAAAAANAANAG
TTCNTTGGAATTNNAGNGTTTNCAAAAATTTTTCCAANAGGAAAGCCNCC
NTTTTAAANCNTTGGAAAAACANNTNTTNANCCAATNGGANAAAAANAAA
AANANGGTCNCNGGTAAANANTTTNCCAANATTAGTAGTTGGGGNGGTAT
GCAAAATTTTTTTTTTTTTGTANCAAATTNTTTCCCTTCANCTTTATTTT
TTTTTTCTTGCTTTCAATTATTTCTATAATCTTGATAAAAAATTGGTCAA
ATTTACAAAAGAATATATTCTAAAGAAAATAAATCAAACAAAGTTTTAGG
AAGTCCNTTTTTTTTATATAAATANATTATAAAAAAAAATAAA
Gap no gap
Contig length 393
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 U13047
List of clone(s) 

est1=CHK558Z,1,384
Translated Amino Acid sequence 
XXXQXQXXXWXXLKXXVXWNXXVXKNFSXRKAXXLXXWKNXXXXNXXKXKXXSXVXXXPX
LVVGXVCKIFFFLXQIXSLXLYFFFLAFNYFYNLDKKLVKFTKEYILKKINQTKF*evxf
fyinxl*kki
Translated Amino Acid sequence (All Frames) 
Frame A:
xxxxkxxkxlexfkxxsslexxxxqkffqxesxxfkxlekxxxxqxxkxkxxvxgkxfxx
isswggmqnffffvxnxfpsxlfffscfqlfl*s**kigqiykriyskenksnkvlgspf
flykxiikknk


Frame B:
XXXQXQXXXWXXLKXXVXWNXXVXKNFSXRKAXXLXXWKNXXXXNXXKXKXXSXVXXXPX
LVVGXVCKIFFFLXQIXSLXLYFFFLAFNYFYNLDKKLVKFTKEYILKKINQTKF*evxf
fyinxl*kki


Frame C:
xxxkxkxxxgxx*kxxfxgixxfxkifpxgkppf*xxgktxxxpxgxkxkxgxx*xxxqx
**lgxyakffffcxkxfpfxfifffllsiisiiliknwsnlqknif*rk*ikqsfrksxf
fi*ixykkk*
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U13047-1 (Contig-U13047-1Q)
/CSM_Contig/Contig-U13047-1Q.Seq.d
         (393 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U13047-1 (Contig-U13047-1Q) /CSM_Contig/Conti...   198  3e-51
Contig-U11720-1 (Contig-U11720-1Q) /CSM_Contig/Conti...    34  0.11
Contig-U14090-1 (Contig-U14090-1Q) /CSM_Contig/Conti...    32  0.42
Contig-U13023-1 (Contig-U13023-1Q) /CSM_Contig/Conti...    32  0.42
Contig-U09764-1 (Contig-U09764-1Q) /CSM_Contig/Conti...    32  0.42
Contig-U07023-1 (Contig-U07023-1Q) /CSM_Contig/Conti...    32  0.42
Contig-U04670-1 (Contig-U04670-1Q) /CSM_Contig/Conti...    32  0.42
Contig-U13254-1 (Contig-U13254-1Q) /CSM_Contig/Conti...    30  1.7
Contig-U13100-1 (Contig-U13100-1Q) /CSM_Contig/Conti...    30  1.7
Contig-U12049-1 (Contig-U12049-1Q) /CSM_Contig/Conti...    30  1.7

>Contig-U13047-1 (Contig-U13047-1Q) /CSM_Contig/Contig-U13047-1Q.Seq.d
          Length = 393

 Score =  198 bits (100), Expect = 3e-51
 Identities = 100/100 (100%)
 Strand = Plus / Plus

                                                                       
Query: 257 cttgctttcaattatttctataatcttgataaaaaattggtcaaatttacaaaagaatat 316
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 257 cttgctttcaattatttctataatcttgataaaaaattggtcaaatttacaaaagaatat 316

                                                   
Query: 317 attctaaagaaaataaatcaaacaaagttttaggaagtcc 356
           ||||||||||||||||||||||||||||||||||||||||
Sbjct: 317 attctaaagaaaataaatcaaacaaagttttaggaagtcc 356


 Score = 87.7 bits (44), Expect = 8e-18
 Identities = 74/74 (100%)
 Strand = Plus / Plus

                                                                       
Query: 49  agttcnttggaattnnagngtttncaaaaatttttccaanaggaaagccnccnttttaaa 108
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 49  agttcnttggaattnnagngtttncaaaaatttttccaanaggaaagccnccnttttaaa 108

                         
Query: 109 ncnttggaaaaaca 122
           ||||||||||||||
Sbjct: 109 ncnttggaaaaaca 122


 Score = 60.0 bits (30), Expect = 2e-09
 Identities = 51/51 (100%)
 Strand = Plus / Plus

                                                              
Query: 156 ggtcncnggtaaanantttnccaanattagtagttggggnggtatgcaaaa 206
           |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 156 ggtcncnggtaaanantttnccaanattagtagttggggnggtatgcaaaa 206


>Contig-U11720-1 (Contig-U11720-1Q) /CSM_Contig/Contig-U11720-1Q.Seq.d
          Length = 532

 Score = 34.2 bits (17), Expect = 0.11
 Identities = 17/17 (100%)
 Strand = Plus / Plus

                            
Query: 325 gaaaataaatcaaacaa 341
           |||||||||||||||||
Sbjct: 247 gaaaataaatcaaacaa 263


>Contig-U14090-1 (Contig-U14090-1Q) /CSM_Contig/Contig-U14090-1Q.Seq.d
          Length = 1099

 Score = 32.2 bits (16), Expect = 0.42
 Identities = 16/16 (100%)
 Strand = Plus / Minus

                           
Query: 288 aaaaattggtcaaatt 303
           ||||||||||||||||
Sbjct: 625 aaaaattggtcaaatt 610


  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: 2497
Number of Sequences: 6905
Number of extensions: 2497
Number of successful extensions: 289
Number of sequences better than 10.0: 81
length of query: 393
length of database: 5,674,871
effective HSP length: 16
effective length of query: 377
effective length of database: 5,564,391
effective search space: 2097775407
effective search space used: 2097775407
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. 6
Homology vs DNA 
Query= Contig-U13047-1 (Contig-U13047-1Q) /CSM_Contig/Contig-U13047-1Q.Seq.d
         (393 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

(BJ381979) Dictyostelium discoideum cDNA clone:ddc43c15, 3' ...   180   7e-58  4
(AC116984) Dictyostelium discoideum chromosome 2 map 2567470...    92   1e-20  3
(AU263771) Dictyostelium discoideum vegetative cDNA clone:VS...    92   2e-14  1
(AU073691) Dictyostelium discoideum slug cDNA, clone SSH849.       92   2e-14  1
(BJ398744) Dictyostelium discoideum cDNA clone:dds2a03, 3' e...    92   2e-14  1
(BJ379535) Dictyostelium discoideum cDNA clone:ddc35m02, 3' ...    84   4e-12  1
(BJ343533) Dictyostelium discoideum cDNA clone:dda16j08, 3' ...    80   7e-11  1
(BJ340235) Dictyostelium discoideum cDNA clone:dda12a12, 3' ...    68   3e-07  1

>(BJ381979) Dictyostelium discoideum cDNA clone:ddc43c15, 3' end,
           single read.
          Length = 384

 Score =  180 bits (91), Expect(4) = 7e-58
 Identities = 196/196 (100%)
 Strand = Plus / Minus


Query: 11  caaagncaaanaaancnttggaanantttaaaaanaanagttcnttggaattnnagngtt 70
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 caaagncaaanaaancnttggaanantttaaaaanaanagttcnttggaattnnagngtt 325


Query: 71  tncaaaaatttttccaanaggaaagccnccnttttaaancnttggaaaaacanntnttna 130
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 tncaaaaatttttccaanaggaaagccnccnttttaaancnttggaaaaacanntnttna 265


Query: 131 nccaatngganaaaaanaaaaananggtcncnggtaaanantttnccaanattagtagtt 190
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 nccaatngganaaaaanaaaaananggtcncnggtaaanantttnccaanattagtagtt 205


Query: 191 ggggnggtatgcaaaa 206
           ||||||||||||||||
Sbjct: 204 ggggnggtatgcaaaa 189

 Score = 56.0 bits (28), Expect(4) = 7e-58
 Identities = 28/28 (100%)
 Strand = Plus / Minus


Query: 257 cttgctttcaattatttctataatcttg 284
           ||||||||||||||||||||||||||||
Sbjct: 138 cttgctttcaattatttctataatcttg 111

 Score = 36.2 bits (18), Expect(4) = 7e-58
 Identities = 27/27 (100%)
 Strand = Plus / Minus


Query: 220 gtancaaattntttcccttcancttta 246
           |||||||||||||||||||||||||||
Sbjct: 175 gtancaaattntttcccttcancttta 149

 Score = 28.2 bits (14), Expect(4) = 7e-58
 Identities = 14/14 (100%)
 Strand = Plus / Minus


Query: 343 gttttaggaagtcc 356
           ||||||||||||||
Sbjct: 52  gttttaggaagtcc 39

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 107,323,233
Number of extensions: 5716612
Number of successful extensions: 232575
Number of sequences better than 10.0: 8
Length of query: 393
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 370
Effective length of database: 93,106,754,628
Effective search space: 34449499212360
Effective search space used: 34449499212360
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7. 5
Homology vs Protein 
Query= Contig-U13047-1 (Contig-U13047-1Q) /CSM_Contig/Contig-U13047-1Q.Seq.d
         (393 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: 258,661,311
Number of extensions: 5455282
Number of successful extensions: 3449
Number of sequences better than 10.0: 0
Number of HSP's gapped: 3449
Number of HSP's successfully gapped: 0
Length of query: 131
Length of database: 1,051,180,864
Length adjustment: 96
Effective length of query: 35
Effective length of database: 740,471,200
Effective search space: 25916492000
Effective search space used: 25916492000
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: 29 (15.8 bits)
PSORT 

 psg: 0.78  gvh: 0.49  alm: 0.32  top: 0.53  tms: 0.07  mit: 0.28  mip: 0.06
 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: 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: 0.00  m2 : 1.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 28.0 %: endoplasmic reticulum
	 24.0 %: cytoplasmic
	 16.0 %: mitochondrial
	 12.0 %: nuclear
	  8.0 %: Golgi
	  8.0 %: plasma membrane
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U13047-1 is end
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