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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-U09610-1
Contig ID Contig-U09610-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U09610-1 (Contig-U09610-1Q) /CSM_Contig/Contig-U09610-1Q.Seq.d
TATAGCAGCAACAACAACATCACCACTGCCACCAACTATAAAAACAACAA
CACCATCACTACCACCACCAATTATAGCAACAACAAAAACAACATCACCA
CCAGCTATAACAACAACATCACCACCACCACCAATTATAACAACAACACC
ATCACTACCACCACCAATTATAAAAACAACACCACCACCAATTATAAAAA
CAACAACAACAACAACAACAATAACAACAACACCACCACCACCAATTATA
ACAACAAAAACAACATCACCACCAATTTTAACAACAACAACATCACCACT
AACACCAATTATTCAAACAATACAACCACAAAAGAAAAACACCACTATAA
ATGCACCAATTTTTAAAACCACCTCACCCCCAACCATAACAACAACAACC
ACAAAAACAATTTTACCACCGTCACCAACAATAACAGCAGCAACAACAAC
TATAACATCACCACAACAACAAATATCAATTTTAGAAAATGATACTACAA
AAGATATTTTAATGAAGGATAATGATAAAAGTGAAAAAGAATCTGATGAA
GAAAGCGATGATTCGGATTCAGAGTCTGAACCAGA----------AAAGG
NAAAAAGAAAANATTAGAAAAAGAGGAGGTTAGAAAAAAGAAAAGTTAGG
AAAAAGAAAAGTTAGAGAGAGAAAAGGTTACAAAAGGAAAAAGAAAGAAT
TGAAAANGAAAGTTTTAAAAAGAAAGATTACAAAAAGAAAGATTAGAGAA
AGAAAGATTAGAAAAAGAAAGATTAGAAAAAGAAAGATTAGAGAGAGAAA
GGTTTCAAAAAGAAAAAGAAAAGTTGGAAAAAGACCAACAAAAAGAAAGA
TTAGAAAAAGAAAAATTAGATAAAGAGAGATTGGAAAAAGAAAAGCTAGA
ACAACAAAAAGAAAAAGAAAGATTGATTGAAAAAGAGAGAGATATTGAAA
AAGAAAGAGATATTGAAATTCAAAAACAATTAGAGAATGAAAAACAAAAG
GAAAAAGAGGAATTGAAAAAGAAAGATTTGAAAAAGAAAGATTAGAAAAA
GAAAGATTAGAAAAAGAAAGATTAGAAAAAGAAAGATTAGAAAAAGAAAG
NATTAGAAAAAGAAAGGTTAGAGAGAGAAAGATCACAAAGGNAAAAAGNA
AAATTNNAAA
Gap gap included
Contig length 1150
Chromosome number (1..6, M) 5
Chromosome length 5062330
Start point 4755555
End point 4754480
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 2
Link to clone list U09610
List of clone(s) 

est1=VFG131F,1,586
est2=VFG131Z,587,1152
Translated Amino Acid sequence 
IAATTTSPLPPTIKTTTPSLPPPIIATTKTTSPPAITTTSPPPPIITTTPSLPPPIIKTT
PPPIIKTTTTTTTITTTPPPPIITTKTTSPPILTTTTSPLTPIIQTIQPQKKNTTINAPI
FKTTSPPTITTTTTKTILPPSPTITAATTTITSPQQQISILENDTTKDILMKDNDKSEKE
SDEESDDSDSESEP---

---KGKKKXLEKEEVRKKKS*ekeklerekvtkgkrkn*kxkf*kerlqkerlekerlek
erlekerlererfqkekeklekdqqkerlekekldkerlekekleqqkekerliekerdi
ekerdieiqkqlenekqkekeelkkkdlkkkd*kkkd*kkkd*kkkd*kkkxlekerler
ersqrxkxkxx
Translated Amino Acid sequence (All Frames) 
Frame A:
yssnnnittatnyknnntittttnysnnknnittsynnnittttnynnntittttnyknn
tttnyknnnnnnnnnnnttttnynnknnittnfnnnnittntnysnntttkekhhykctn
f*nhltpnhnnnnhknnfttvtnnnssnnnynittttninfrk*yykryfneg***k*kr
i**rkr*fgfrv*tr---

---KGKKKXLEKEEVRKKKS*ekeklerekvtkgkrkn*kxkf*kerlqkerlekerlek
erlekerlererfqkekeklekdqqkerlekekldkerlekekleqqkekerliekerdi
ekerdieiqkqlenekqkekeelkkkdlkkkd*kkkd*kkkd*kkkd*kkkxlekerler
ersqrxkxkxx

Frame B:
IAATTTSPLPPTIKTTTPSLPPPIIATTKTTSPPAITTTSPPPPIITTTPSLPPPIIKTT
PPPIIKTTTTTTTITTTPPPPIITTKTTSPPILTTTTSPLTPIIQTIQPQKKNTTINAPI
FKTTSPPTITTTTTKTILPPSPTITAATTTITSPQQQISILENDTTKDILMKDNDKSEKE
SDEESDDSDSESEP---

---kxkrkx*kkrrlekrkvrkkks*rekrlqkekeriexesfkkkdykkkd*rkkd*kk
kd*kkkd*rekgfkkkkkswkktnkkkd*kkkn*ikrdwkkks*nnkkkkkd*lkkreil
kkkeilkfknn*rmknkrkkrn*krki*krkirkrkirkrkirkrkirkrkx*kkkg*re
kdhkgkkxnxk

Frame C:
*qqqqhhhchql*kqqhhhyhhql*qqqkqhhhql*qqhhhhhql*qqhhhyhhql*kqh
hhql*kqqqqqqq*qqhhhhql*qqkqhhhqf*qqqhhh*hqlfkqynhkrktpl*mhqf
lkpphpqp*qqqpqkqfyhrhqq*qqqqql*hhhnnkyqf*kmilqkif**rimikvkkn
lmkkamiriqslnq---

---rxkexirkrgg*kkeklgkrkvrerkgykrkkkelkxkvlkrkitkrkirerkirkr
kirkrkirerkvskrkrkvgkrptkrkirkrkir*reigkrkarttkrkrkid*krery*
krkry*nsktire*ktkgkrgiekerfekerlekerlekerlekerlekexirkrkvrer
kitkxkxkix
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U09610-1 (Contig-U09610-1Q)
/CSM_Contig/Contig-U09610-1Q.Seq.d
         (1160 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U09610-1 (Contig-U09610-1Q) /CSM_Contig/Conti...   272  8e-73
Contig-U01210-1 (Contig-U01210-1Q) /CSM_Contig/Conti...    44  3e-04
Contig-U12952-1 (Contig-U12952-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U13396-1 (Contig-U13396-1Q) /CSM_Contig/Conti...    40  0.005
Contig-U12283-1 (Contig-U12283-1Q) /CSM_Contig/Conti...    40  0.005
Contig-U12014-1 (Contig-U12014-1Q) /CSM_Contig/Conti...    40  0.005
Contig-U01374-1 (Contig-U01374-1Q) /CSM_Contig/Conti...    40  0.005
Contig-U14250-1 (Contig-U14250-1Q) /CSM_Contig/Conti...    38  0.021
Contig-U13650-1 (Contig-U13650-1Q) /CSM_Contig/Conti...    38  0.021
Contig-U12810-1 (Contig-U12810-1Q) /CSM_Contig/Conti...    38  0.021

>Contig-U09610-1 (Contig-U09610-1Q) /CSM_Contig/Contig-U09610-1Q.Seq.d
          Length = 1160

 Score =  272 bits (137), Expect = 8e-73
 Identities = 137/137 (100%)
 Strand = Plus / Plus

                                                                       
Query: 449 actataacatcaccacaacaacaaatatcaattttagaaaatgatactacaaaagatatt 508
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 449 actataacatcaccacaacaacaaatatcaattttagaaaatgatactacaaaagatatt 508

                                                                       
Query: 509 ttaatgaaggataatgataaaagtgaaaaagaatctgatgaagaaagcgatgattcggat 568
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 509 ttaatgaaggataatgataaaagtgaaaaagaatctgatgaagaaagcgatgattcggat 568

                            
Query: 569 tcagagtctgaaccaga 585
           |||||||||||||||||
Sbjct: 569 tcagagtctgaaccaga 585


 Score =  254 bits (128), Expect = 2e-67
 Identities = 128/128 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   tatagcagcaacaacaacatcaccactgccaccaactataaaaacaacaacaccatcact 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   tatagcagcaacaacaacatcaccactgccaccaactataaaaacaacaacaccatcact 60

                                                                       
Query: 61  accaccaccaattatagcaacaacaaaaacaacatcaccaccagctataacaacaacatc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  accaccaccaattatagcaacaacaaaaacaacatcaccaccagctataacaacaacatc 120

                   
Query: 121 accaccac 128
           ||||||||
Sbjct: 121 accaccac 128


 Score =  196 bits (99), Expect = 4e-50
 Identities = 99/99 (100%)
 Strand = Plus / Plus

                                                                       
Query: 289 aacatcaccactaacaccaattattcaaacaatacaaccacaaaagaaaaacaccactat 348
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 289 aacatcaccactaacaccaattattcaaacaatacaaccacaaaagaaaaacaccactat 348

                                                  
Query: 349 aaatgcaccaatttttaaaaccacctcacccccaaccat 387
           |||||||||||||||||||||||||||||||||||||||
Sbjct: 349 aaatgcaccaatttttaaaaccacctcacccccaaccat 387


 Score = 83.8 bits (42), Expect = 4e-16
 Identities = 68/76 (89%), Gaps = 3/76 (3%)
 Strand = Plus / Plus

                                                                       
Query: 10  aacaacaacatcaccactgccaccaactataaaaacaacaacaccatcactaccaccacc 69
           |||||||||||||||||  ||||||| |||||   |||||||||||||||||||||||||
Sbjct: 109 aacaacaacatcaccaccaccaccaattataa---caacaacaccatcactaccaccacc 165

                           
Query: 70  aattatagcaacaaca 85
           |||||||  |||||||
Sbjct: 166 aattataaaaacaaca 181


 Score = 71.9 bits (36), Expect = 1e-12
 Identities = 74/86 (86%), Gaps = 3/86 (3%)
 Strand = Plus / Plus

                                                                       
Query: 43  aacaacaacaccatcactaccaccaccaattatagcaacaacaaaaacaacatcaccacc 102
           ||||| |||| || ||| ||||||||||||||||   |||||||||||||||||||||||
Sbjct: 217 aacaataacaacaacaccaccaccaccaattata---acaacaaaaacaacatcaccacc 273

                                     
Query: 103 agctataacaacaacatcaccaccac 128
           |  | ||||||||||| || ||||||
Sbjct: 274 aattttaacaacaacaacatcaccac 299


 Score = 46.1 bits (23), Expect = 9e-05
 Identities = 41/47 (87%)
 Strand = Plus / Plus

                                                          
Query: 9   caacaacaacatcaccactgccaccaactataaaaacaacaacacca 55
           |||||||| |||||| ||  ||||||| ||||||||||||| |||||
Sbjct: 141 caacaacaccatcactaccaccaccaattataaaaacaacaccacca 187


 Score = 44.1 bits (22), Expect = 3e-04
 Identities = 31/34 (91%)
 Strand = Plus / Plus

                                             
Query: 61  accaccaccaattatagcaacaacaaaaacaaca 94
           ||||||||||||||||  |||||||| |||||||
Sbjct: 181 accaccaccaattataaaaacaacaacaacaaca 214


 Score = 40.1 bits (20), Expect = 0.005
 Identities = 23/24 (95%)
 Strand = Plus / Plus

                                   
Query: 29  ccaccaactataaaaacaacaaca 52
           ||||||| ||||||||||||||||
Sbjct: 185 ccaccaattataaaaacaacaaca 208


 Score = 38.2 bits (19), Expect = 0.021
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 9   caacaacaacatcaccact 27
           |||||||||||||||||||
Sbjct: 282 caacaacaacatcaccact 300


 Score = 32.2 bits (16), Expect = 1.3
 Identities = 34/40 (85%)
 Strand = Plus / Plus

                                                   
Query: 79  aacaacaaaaacaacatcaccaccagctataacaacaaca 118
           |||||||| | || || ||||||||  |||||||||||||
Sbjct: 109 aacaacaacatcaccaccaccaccaattataacaacaaca 148


 Score = 32.2 bits (16), Expect = 1.3
 Identities = 22/24 (91%)
 Strand = Plus / Plus

                                   
Query: 289 aacatcaccactaacaccaattat 312
           ||||||||||| | ||||||||||
Sbjct: 115 aacatcaccaccaccaccaattat 138


 Score = 30.2 bits (15), Expect = 5.1
 Identities = 15/15 (100%)
 Strand = Plus / Plus

                          
Query: 4   agcagcaacaacaac 18
           |||||||||||||||
Sbjct: 436 agcagcaacaacaac 450


>Contig-U01210-1 (Contig-U01210-1Q) /CSM_Contig/Contig-U01210-1Q.Seq.d
          Length = 866

 Score = 44.1 bits (22), Expect = 3e-04
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                 
Query: 43  aacaacaacaccatcactacca 64
           ||||||||||||||||||||||
Sbjct: 119 aacaacaacaccatcactacca 140


 Score = 32.2 bits (16), Expect = 1.3
 Identities = 16/16 (100%)
 Strand = Plus / Plus

                           
Query: 2   atagcagcaacaacaa 17
           ||||||||||||||||
Sbjct: 505 atagcagcaacaacaa 520


>Contig-U12952-1 (Contig-U12952-1Q) /CSM_Contig/Contig-U12952-1Q.Seq.d
          Length = 607

 Score = 42.1 bits (21), Expect = 0.001
 Identities = 36/41 (87%)
 Strand = Plus / Plus

                                                    
Query: 78  caacaacaaaaacaacatcaccaccagctataacaacaaca 118
           ||||||||||||||||| || || |||| | ||||||||||
Sbjct: 447 caacaacaaaaacaacaacaacaacagcaacaacaacaaca 487


 Score = 30.2 bits (15), Expect = 5.1
 Identities = 18/19 (94%)
 Strand = Plus / Plus

                              
Query: 76  agcaacaacaaaaacaaca 94
           ||||||||||| |||||||
Sbjct: 472 agcaacaacaacaacaaca 490


  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: 16,752
Number of Sequences: 6905
Number of extensions: 16752
Number of successful extensions: 2613
Number of sequences better than 10.0: 389
length of query: 1160
length of database: 5,674,871
effective HSP length: 16
effective length of query: 1144
effective length of database: 5,564,391
effective search space: 6365663304
effective search space used: 6365663304
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)
dna update 2008.11.16
Homology vs DNA 
Query= Contig-U09610-1 (Contig-U09610-1Q) /CSM_Contig/Contig-U09610-1Q.Seq.d
         (1160 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

(BJ412922) Dictyostelium discoideum cDNA clone:ddv13m07, 5' ...   224   1e-58  2
(CU550682) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   3.0    1
(DY845632) CcinSEQ6262 Coprinus cinereus pBluescript (EcoRI-...    46   3.0    1

>(BJ412922) Dictyostelium discoideum cDNA clone:ddv13m07, 5' end,
           single read.
          Length = 586

 Score =  224 bits (113), Expect(2) = 1e-58
 Identities = 113/113 (100%)
 Strand = Plus / Plus


Query: 473 atatcaattttagaaaatgatactacaaaagatattttaatgaaggataatgataaaagt 532
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 473 atatcaattttagaaaatgatactacaaaagatattttaatgaaggataatgataaaagt 532


Query: 533 gaaaaagaatctgatgaagaaagcgatgattcggattcagagtctgaaccaga 585
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 533 gaaaaagaatctgatgaagaaagcgatgattcggattcagagtctgaaccaga 585

 Score = 42.1 bits (21), Expect(2) = 1e-58
 Identities = 21/21 (100%)
 Strand = Plus / Plus


Query: 345 ctataaatgcaccaattttta 365
           |||||||||||||||||||||
Sbjct: 345 ctataaatgcaccaattttta 365

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 181,219,960
Number of extensions: 11679238
Number of successful extensions: 1010648
Number of sequences better than 10.0: 3
Length of query: 1160
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 1136
Effective length of database: 97,308,875,965
Effective search space: 110542883096240
Effective search space used: 110542883096240
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 6.26
Homology vs Protein 
Query= Contig-U09610-1 (Contig-U09610-1Q) /CSM_Contig/Contig-U09610-1Q.Seq.d
         (1160 letters)

Database: nrp_A
           3,204,285 sequences; 1,040,966,779 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: 3204285
Number of Hits to DB: 198,257,166
Number of extensions: 1037526
Number of successful extensions: 3411
Number of sequences better than 10.0: 0
Number of HSP's gapped: 3408
Number of HSP's successfully gapped: 0
Length of query: 386
Length of database: 1,040,966,779
Length adjustment: 130
Effective length of query: 256
Effective length of database: 624,409,729
Effective search space: 159848890624
Effective search space used: 159848890624
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: 32 (16.9 bits)
PSORT 

 psg: 0.86  gvh: 0.37  alm: 0.49  top: 0.53  tms: 0.00  mit: 1.09  mip: 0.00
 nuc: 0.10  erl: 0.00  erm: 0.60  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 

	 68.0 %: mitochondrial
	 20.0 %: nuclear
	  8.0 %: cytoplasmic
	  4.0 %: cytoskeletal

>> prediction for Contig-U09610-1 is mit
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 1
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