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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-U15299-1
Contig ID Contig-U15299-1
Contig update 2004. 6.11
Contig sequence 
>Contig-U15299-1 (Contig-U15299-1Q) /CSM_Contig/Contig-U15299-1Q.Seq.d
TTTAACATAAAAAAAGACACACACACACACACACTCTCTCATTTAGTACT
TCAAATAGTATCCTATTAACAAATATCATTTTTAACAACAAAAATAGACA
ATATTTTAGTATAGTTTATAATAAAAATAAAATAAAAAATAAAAAAAAAA
ATAAATAAATAAAAAAATAAAAAAAATAAAAAAATTTTTATATAAATTTA
TTAAAGTAAAGATAAAAATTTAATATAAATATATAACAATACAATCTGGA
ATTACTAAAATCTTGTTTTGAAGGTGTACTAAAATTCACCTCATATAGAG
GTGATAATGGCACCTCAACAAAATATAATGAAACAACTACAGCAAATGGT
GATGAAGAAAATATAATAAAACAACAAAAACAACAACAACAACAACAACA
ACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAACAAC
AACAACAACAACAACAACAACATCAACATCAACATCAACAGCAGTCATCA
CCATATCCTTCTTCTTCACCATCGTCAACAACAGTTTCTCAAAATAATGA
TAATTTAAATCATAATGTACATAGTTTAAATAATAGTAGTAATAATAATA
ATAATAATAATAAT
Gap no gap
Contig length 614
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 2127174
End point 2126644
Strand (PLUS/MINUS) MINUS
Number of clones 2
Number of EST 2
Link to clone list U15299
List of clone(s) 

est1=AHL795F,1,265
est2=SSL142F,90,614
Translated Amino Acid sequence 
*hkkrhththtlsfstsnsilltniifnnknrqyfsivynknkiknkkknk*ikk*kk*k
nfyinllk*r*kfnini*QYNLELLKSCFEGVLKFTSYRGDNGTSTKYNETTTANGDEEN
IIKQQKQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQHQHQHQQQSSPYPSSSPSSTTVSQ
NNDNLNHNVHSLNNSSNNNNNNNN
Translated Amino Acid sequence (All Frames) 
Frame A:
fnikkdththtlshlvlqivsy*qisflttkidnilv*fiikik*kikkkink*knkknk
kifi*iy*skdknli*iynntiwny*nlvlkvy*nsphievimapqqnimkqlqqmvmkk
i**nnknnnnnnnnnnnnnnnnnnnnnnnnnnnnnnninininsshhhilllhhrqqqfl
kimii*iimyiv*iivviiiiiii


Frame B:
lt*kkthththsli*yfk*ypinkyhf*qqk*tif*ysl**k*nkk*kkk*inkkikkik
kflykfikvkiki*ykyitiqsgitkilf*rctkihli*r**whlnki**nnyskw**rk
ynkttktttttttttttttttttttttttttttttttstststavitisffftivnnsfs
k***fks*ct*fk***********


Frame C:
*hkkrhththtlsfstsnsilltniifnnknrqyfsivynknkiknkkknk*ikk*kk*k
nfyinllk*r*kfnini*QYNLELLKSCFEGVLKFTSYRGDNGTSTKYNETTTANGDEEN
IIKQQKQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQHQHQHQQQSSPYPSSSPSSTTVSQ
NNDNLNHNVHSLNNSSNNNNNNNN
own update 2004. 6.23
Homology vs CSM-cDNA 
Query= Contig-U15299-1 (Contig-U15299-1Q)
/CSM_Contig/Contig-U15299-1Q.Seq.d
         (614 letters)

Database: CSM
           8402 sequences; 8,075,542 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U15299-1 (Contig-U15299-1Q) /CSM_Contig/Conti...   266  4e-71
Contig-U15756-1 (Contig-U15756-1Q) /CSM_Contig/Conti...    38  0.015
Contig-U10782-1 (Contig-U10782-1Q) /CSM_Contig/Conti...    38  0.015
Contig-U13371-1 (Contig-U13371-1Q) /CSM_Contig/Conti...    36  0.061
Contig-U11831-1 (Contig-U11831-1Q) /CSM_Contig/Conti...    36  0.061
Contig-U08029-1 (Contig-U08029-1Q) /CSM_Contig/Conti...    36  0.061
Contig-U04081-1 (Contig-U04081-1Q) /CSM_Contig/Conti...    36  0.061
Contig-U16101-1 (Contig-U16101-1Q) /CSM_Contig/Conti...    34  0.24
Contig-U14691-1 (Contig-U14691-1Q) /CSM_Contig/Conti...    34  0.24
Contig-U12530-1 (Contig-U12530-1Q) /CSM_Contig/Conti...    34  0.24

>Contig-U15299-1 (Contig-U15299-1Q) /CSM_Contig/Contig-U15299-1Q.Seq.d
          Length = 614

 Score =  266 bits (134), Expect = 4e-71
 Identities = 134/134 (100%)
 Strand = Plus / Plus

                                                                       
Query: 236 acaatacaatctggaattactaaaatcttgttttgaaggtgtactaaaattcacctcata 295
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 236 acaatacaatctggaattactaaaatcttgttttgaaggtgtactaaaattcacctcata 295

                                                                       
Query: 296 tagaggtgataatggcacctcaacaaaatataatgaaacaactacagcaaatggtgatga 355
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 296 tagaggtgataatggcacctcaacaaaatataatgaaacaactacagcaaatggtgatga 355

                         
Query: 356 agaaaatataataa 369
           ||||||||||||||
Sbjct: 356 agaaaatataataa 369


 Score =  172 bits (87), Expect = 4e-43
 Identities = 87/87 (100%)
 Strand = Plus / Plus

                                                                       
Query: 35  tctctcatttagtacttcaaatagtatcctattaacaaatatcatttttaacaacaaaaa 94
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35  tctctcatttagtacttcaaatagtatcctattaacaaatatcatttttaacaacaaaaa 94

                                      
Query: 95  tagacaatattttagtatagtttataa 121
           |||||||||||||||||||||||||||
Sbjct: 95  tagacaatattttagtatagtttataa 121


 Score = 95.6 bits (48), Expect = 8e-20
 Identities = 48/48 (100%)
 Strand = Plus / Plus

                                                           
Query: 491 gcagtcatcaccatatccttcttcttcaccatcgtcaacaacagtttc 538
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 491 gcagtcatcaccatatccttcttcttcaccatcgtcaacaacagtttc 538


 Score = 32.2 bits (16), Expect = 0.96
 Identities = 16/16 (100%)
 Strand = Plus / Plus

                          
Query: 1  tttaacataaaaaaag 16
          ||||||||||||||||
Sbjct: 1  tttaacataaaaaaag 16


>Contig-U15756-1 (Contig-U15756-1Q) /CSM_Contig/Contig-U15756-1Q.Seq.d
          Length = 1450

 Score = 38.2 bits (19), Expect = 0.015
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                   
Query: 340  cagcaaatggtgatgaagaaaat 362
            ||||||||| |||||||||||||
Sbjct: 1301 cagcaaatgatgatgaagaaaat 1323


>Contig-U10782-1 (Contig-U10782-1Q) /CSM_Contig/Contig-U10782-1Q.Seq.d
          Length = 1490

 Score = 38.2 bits (19), Expect = 0.015
 Identities = 25/27 (92%)
 Strand = Plus / Plus

                                      
Query: 333 acaactacagcaaatggtgatgaagaa 359
           |||||||| ||||||||||||| ||||
Sbjct: 506 acaactactgcaaatggtgatggagaa 532


  Database: CSM
    Posted date:  Jun 21, 2004  1:35 PM
  Number of letters in database: 8,075,542
  Number of sequences in database:  8402
  
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: 5815
Number of Sequences: 8402
Number of extensions: 5815
Number of successful extensions: 577
Number of sequences better than 10.0: 60
length of query: 614
length of database: 8,075,542
effective HSP length: 16
effective length of query: 598
effective length of database: 7,941,110
effective search space: 4748783780
effective search space used: 4748783780
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 2009. 1.18
Homology vs DNA 
Query= Contig-U15299-1 (Contig-U15299-1Q) /CSM_Contig/Contig-U15299-1Q.Seq.d
         (614 letters)

Database: ddbj_B
           98,226,423 sequences; 98,766,808,389 total letters

Searching..................................................done

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

(AY162269) Dictyostelium discoideum cGMP-specific phosphodie...   200   e-118  4
(AU074502) Dictyostelium discoideum slug cDNA, clone SSL142.      174   1e-47  2
(BJ336729) Dictyostelium discoideum cDNA clone:dda54n23, 5' ...   165   4e-42  3
(AC011624) Arabidopsis thaliana chromosome 3 clone TAMU-T18B...    44   1.1    2
(AR777033) Sequence 188 from patent US 6972197.                    44   1.3    2
(AP008210) Oryza sativa (japonica cultivar-group) genomic DN...    46   1.6    1
(AL606998) Oryza sativa genomic DNA, chromosome 4, BAC clone...    46   1.6    1
(AL606623) Oryza sativa genomic DNA, chromosome 4, BAC clone...    46   1.6    1
(EA698282) Sequence 77161 from patent US 7365185.                  46   1.6    1
(EA690206) Sequence 69085 from patent US 7365185.                  46   1.6    1
(AL590672) Human DNA sequence from clone CTD-2609B1 on chrom...    46   1.6    1
(FP067418) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   1.6    1
(CU915389) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   1.6    1
(AL355584) Human DNA sequence *** SEQUENCING CANCELLED *** f...    46   1.6    1
(AZ664126) 1M0544F10F Mouse 10kb plasmid UUGC1M library Mus ...    40   2.2    2
(AC215421) Solanum lycopersicum chromosome 2 clone C02HBa020...    42   3.7    3
(AC195517) Pan troglodytes BAC clone CH251-597E5 from chromo...    44   6.3    1
(AC192443) Pan troglodytes BAC clone CH251-440J19 from chrom...    44   6.3    1
(AC093090) Arabidopsis thaliana chromosome 3 BAC F1C23 genom...    44   6.3    1
(DD000773) PLANT ARTIFICIAL CHROMOSOME COMPOSITIONS AND METH...    44   6.3    1
(AX059458) Sequence 191 from Patent WO0055325.                     44   6.3    1
(AL360173) Human DNA sequence from clone RP11-75F12 on chrom...    44   6.3    1
(AL139337) Human DNA sequence *** SEQUENCING CANCELLED *** f...    44   6.3    1
(ER863486) POTJE64TR Solanum tuberosum RHPOTKEY BAC ends Sol...    44   6.3    1
(EK032888) 1092956090013 Global-Ocean-Sampling_GS-31-01-01-1...    44   6.3    1
(EI838888) POTFV42TR Solanum tuberosum RHPOTKEY BAC ends Sol...    44   6.3    1
(EL474876) CHUL2822.b1_L09.ab1 CHU(LMS) puzzle sunflower Hel...    44   6.3    1
(EG115783) MSAM161039_1940_1394 LCM-dissected maize inbred l...    44   6.3    1
(EC157003) KME00004513 Karlodinium micrum Non-normalized Kar...    44   6.3    1
(AY321102) Vipera aspis francisciredi cytochrome b gene, par...    38   10.0   2

>(AY162269) Dictyostelium discoideum cGMP-specific phosphodiesterase
           (PDE3) gene, complete cds.
          Length = 2096

 Score =  200 bits (101), Expect(4) = e-118
 Identities = 101/101 (100%)
 Strand = Plus / Plus


Query: 246 ctggaattactaaaatcttgttttgaaggtgtactaaaattcacctcatatagaggtgat 305
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 225 ctggaattactaaaatcttgttttgaaggtgtactaaaattcacctcatatagaggtgat 284


Query: 306 aatggcacctcaacaaaatataatgaaacaactacagcaaa 346
           |||||||||||||||||||||||||||||||||||||||||
Sbjct: 285 aatggcacctcaacaaaatataatgaaacaactacagcaaa 325

 Score =  165 bits (83), Expect(4) = e-118
 Identities = 83/83 (100%)
 Strand = Plus / Plus


Query: 35  tctctcatttagtacttcaaatagtatcctattaacaaatatcatttttaacaacaaaaa 94
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 14  tctctcatttagtacttcaaatagtatcctattaacaaatatcatttttaacaacaaaaa 73


Query: 95  tagacaatattttagtatagttt 117
           |||||||||||||||||||||||
Sbjct: 74  tagacaatattttagtatagttt 96

 Score = 99.6 bits (50), Expect(4) = e-118
 Identities = 50/50 (100%)
 Strand = Plus / Plus


Query: 491 gcagtcatcaccatatccttcttcttcaccatcgtcaacaacagtttctc 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 471 gcagtcatcaccatatccttcttcttcaccatcgtcaacaacagtttctc 520

 Score = 48.1 bits (24), Expect(4) = e-118
 Identities = 24/24 (100%)
 Strand = Plus / Plus


Query: 344 aaatggtgatgaagaaaatataat 367
           ||||||||||||||||||||||||
Sbjct: 324 aaatggtgatgaagaaaatataat 347

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 98226423
Number of Hits to DB: 404,832,849
Number of extensions: 25288191
Number of successful extensions: 2109014
Number of sequences better than 10.0: 30
Length of query: 614
Length of database: 98,766,808,389
Length adjustment: 23
Effective length of query: 591
Effective length of database: 100,802,567,956
Effective search space: 59574317661996
Effective search space used: 59574317661996
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7.15
Homology vs Protein 
Query= Contig-U15299-1 (Contig-U15299-1Q) /CSM_Contig/Contig-U15299-1Q.Seq.d
         (614 letters)

Database: nrp_B
           3,236,559 sequences; 1,051,180,864 total letters

Searching..................................................done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AY162269_1(AY162269|pid:none) Dictyostelium discoideum cGMP-spec...    30   4.8

>AY162269_1(AY162269|pid:none) Dictyostelium discoideum
           cGMP-specific phosphodiesterase (PDE3) gene, complete
           cds.
          Length = 522

 Score = 29.6 bits (65), Expect(2) = 4.8
 Identities = 13/13 (100%), Positives = 13/13 (100%)
 Frame = +1

Query: 307 MAPQQNIMKQLQQ 345
           MAPQQNIMKQLQQ
Sbjct: 1   MAPQQNIMKQLQQ 13

 Score = 22.7 bits (47), Expect(2) = 4.8
 Identities = 9/9 (100%), Positives = 9/9 (100%)
 Frame = +3

Query: 345 NGDEENIIK 371
           NGDEENIIK
Sbjct: 14  NGDEENIIK 22

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: 364,967,435
Number of extensions: 3676140
Number of successful extensions: 10345
Number of sequences better than 10.0: 1
Number of HSP's gapped: 10331
Number of HSP's successfully gapped: 2
Length of query: 204
Length of database: 1,051,180,864
Length adjustment: 122
Effective length of query: 82
Effective length of database: 656,320,666
Effective search space: 53818294612
Effective search space used: 53818294612
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: 31 (16.5 bits)
PSORT 

 psg: 0.71  gvh: 0.38  alm: 0.52  top: 0.53  tms: 0.00  mit: 0.20  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 

	 44.0 %: cytoplasmic
	 36.0 %: nuclear
	 16.0 %: mitochondrial
	  4.0 %: cytoskeletal

>> prediction for Contig-U15299-1 is cyt
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 1
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 1
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