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Dicty_cDB
Contig List | Clone List | cDNA Library List
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U12726-1
Contig ID Contig-U12726-1
Contig update 2002.12.18
Contig sequence 
>Contig-U12726-1 (Contig-U12726-1Q) /CSM_Contig/Contig-U12726-1Q.Seq.d
ATATTTTTTTAATTGTAATAAATTTTTTTTTATAAAACTACACAAGCACA
AGCACAAACACAAACACAGAAGAAAAAAAAAAAAAAANAAAAAAACCGGG
GTTTNTNTNNAATTTTTTNTTCAATTAAAAAAAGACTTTTAACCCCCCCN
TAAAAAAAANCAAACCNCCAAAAAAAAAANNNNNNNNN
Gap no gap
Contig length 188
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 U12726
List of clone(s) 

est1=AHI417F,1,179
Translated Amino Acid sequence 
YFFNCNKFFFIKLHKHKHKHKHRRKKKKXKKTGVXXXFFXQLKKDF*ppxkkxqtxkkkx
xx
Translated Amino Acid sequence (All Frames) 
Frame A:
iff*l**iffykttqaqaqtqtqkkkkkkxknrgxxxifxsikkrlltpp*kkxnxqkkx
xx


Frame B:
YFFNCNKFFFIKLHKHKHKHKHRRKKKKXKKTGVXXXFFXQLKKDF*ppxkkxqtxkkkx
xx


Frame C:
iflivinffl*nytststntnteekkkkxkkpgfxxnfxfn*kktfnppxkkxkppkkkx
xx
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U12726-1 (Contig-U12726-1Q)
/CSM_Contig/Contig-U12726-1Q.Seq.d
         (188 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U12726-1 (Contig-U12726-1Q) /CSM_Contig/Conti...    90  1e-18
Contig-U12965-1 (Contig-U12965-1Q) /CSM_Contig/Conti...    42  2e-04
Contig-U11843-1 (Contig-U11843-1Q) /CSM_Contig/Conti...    42  2e-04
Contig-U10533-1 (Contig-U10533-1Q) /CSM_Contig/Conti...    36  0.012
Contig-U14790-1 (Contig-U14790-1Q) /CSM_Contig/Conti...    34  0.049
Contig-U12228-1 (Contig-U12228-1Q) /CSM_Contig/Conti...    34  0.049
Contig-U06986-1 (Contig-U06986-1Q) /CSM_Contig/Conti...    34  0.049
Contig-U12733-1 (Contig-U12733-1Q) /CSM_Contig/Conti...    32  0.19
Contig-U11988-1 (Contig-U11988-1Q) /CSM_Contig/Conti...    32  0.19
Contig-U11470-1 (Contig-U11470-1Q) /CSM_Contig/Conti...    32  0.19

>Contig-U12726-1 (Contig-U12726-1Q) /CSM_Contig/Contig-U12726-1Q.Seq.d
          Length = 188

 Score = 89.7 bits (45), Expect = 1e-18
 Identities = 63/72 (87%)
 Strand = Plus / Plus

                                                                      
Query: 1  atatttttttaattgtaataaannnnnnnnnataaaactacacaagcacaagcacaaaca 60
          ||||||||||||||||||||||         |||||||||||||||||||||||||||||
Sbjct: 1  atatttttttaattgtaataaatttttttttataaaactacacaagcacaagcacaaaca 60

                      
Query: 61 caaacacagaag 72
          ||||||||||||
Sbjct: 61 caaacacagaag 72


 Score = 36.2 bits (18), Expect = 0.012
 Identities = 47/54 (87%)
 Strand = Plus / Plus

                                                                 
Query: 96  ccggggtttntntnnaattttttnttcaattnnnnnnngacttttaaccccccc 149
           |||||||||||||||||||||||||||||||       ||||||||||||||||
Sbjct: 96  ccggggtttntntnnaattttttnttcaattaaaaaaagacttttaaccccccc 149


>Contig-U12965-1 (Contig-U12965-1Q) /CSM_Contig/Contig-U12965-1Q.Seq.d
          Length = 729

 Score = 42.1 bits (21), Expect = 2e-04
 Identities = 27/29 (93%)
 Strand = Plus / Plus

                                        
Query: 40  acacaagcacaagcacaaacacaaacaca 68
           |||||| ||||| ||||||||||||||||
Sbjct: 198 acacaaacacaaacacaaacacaaacaca 226


 Score = 42.1 bits (21), Expect = 2e-04
 Identities = 27/29 (93%)
 Strand = Plus / Plus

                                        
Query: 40  acacaagcacaagcacaaacacaaacaca 68
           |||||| ||||| ||||||||||||||||
Sbjct: 186 acacaaacacaaacacaaacacaaacaca 214


 Score = 42.1 bits (21), Expect = 2e-04
 Identities = 27/29 (93%)
 Strand = Plus / Plus

                                        
Query: 40  acacaagcacaagcacaaacacaaacaca 68
           |||||| ||||| ||||||||||||||||
Sbjct: 192 acacaaacacaaacacaaacacaaacaca 220


 Score = 38.2 bits (19), Expect = 0.003
 Identities = 25/27 (92%)
 Strand = Plus / Plus

                                      
Query: 42  acaagcacaagcacaaacacaaacaca 68
           |||| ||||| ||||||||||||||||
Sbjct: 182 acaaacacaaacacaaacacaaacaca 208


 Score = 36.2 bits (18), Expect = 0.012
 Identities = 24/26 (92%)
 Strand = Plus / Plus

                                     
Query: 40  acacaagcacaagcacaaacacaaac 65
           |||||| ||||| |||||||||||||
Sbjct: 204 acacaaacacaaacacaaacacaaac 229


>Contig-U11843-1 (Contig-U11843-1Q) /CSM_Contig/Contig-U11843-1Q.Seq.d
          Length = 1107

 Score = 42.1 bits (21), Expect = 2e-04
 Identities = 27/29 (93%)
 Strand = Plus / Plus

                                        
Query: 40  acacaagcacaagcacaaacacaaacaca 68
           |||||| ||||| ||||||||||||||||
Sbjct: 314 acacaaacacaaacacaaacacaaacaca 342


 Score = 42.1 bits (21), Expect = 2e-04
 Identities = 27/29 (93%)
 Strand = Plus / Plus

                                        
Query: 40  acacaagcacaagcacaaacacaaacaca 68
           |||||| ||||| ||||||||||||||||
Sbjct: 320 acacaaacacaaacacaaacacaaacaca 348


 Score = 42.1 bits (21), Expect = 2e-04
 Identities = 27/29 (93%)
 Strand = Plus / Plus

                                        
Query: 40  acacaagcacaagcacaaacacaaacaca 68
           |||||| ||||| ||||||||||||||||
Sbjct: 308 acacaaacacaaacacaaacacaaacaca 336


 Score = 36.2 bits (18), Expect = 0.012
 Identities = 24/26 (92%)
 Strand = Plus / Plus

                                     
Query: 40  acacaagcacaagcacaaacacaaac 65
           |||||| ||||| |||||||||||||
Sbjct: 441 acacaaacacaaacacaaacacaaac 466


 Score = 36.2 bits (18), Expect = 0.012
 Identities = 21/22 (95%)
 Strand = Plus / Plus

                                 
Query: 47  cacaagcacaaacacaaacaca 68
           ||||| ||||||||||||||||
Sbjct: 442 cacaaacacaaacacaaacaca 463


 Score = 34.2 bits (17), Expect = 0.049
 Identities = 23/25 (92%)
 Strand = Plus / Plus

                                    
Query: 40  acacaagcacaagcacaaacacaaa 64
           |||||| ||||| ||||||||||||
Sbjct: 326 acacaaacacaaacacaaacacaaa 350


 Score = 32.2 bits (16), Expect = 0.19
 Identities = 25/28 (89%)
 Strand = Plus / Plus

                                       
Query: 40  acacaagcacaagcacaaacacaaacac 67
           |||||| ||||| | |||||||||||||
Sbjct: 398 acacaaacacaaactcaaacacaaacac 425


 Score = 28.2 bits (14), Expect = 3.0
 Identities = 23/26 (88%)
 Strand = Plus / Plus

                                     
Query: 40  acacaagcacaagcacaaacacaaac 65
           |||||| ||||| | |||||||||||
Sbjct: 453 acacaaacacaaactcaaacacaaac 478


  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: 2398
Number of Sequences: 6905
Number of extensions: 2398
Number of successful extensions: 713
Number of sequences better than 10.0: 85
length of query: 188
length of database: 5,674,871
effective HSP length: 15
effective length of query: 173
effective length of database: 5,571,296
effective search space: 963834208
effective search space used: 963834208
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. 2
Homology vs DNA 
Query= Contig-U12726-1 (Contig-U12726-1Q) /CSM_Contig/Contig-U12726-1Q.Seq.d
         (188 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

(BJ334570) Dictyostelium discoideum cDNA clone:dda47b06, 5' ...    82   5e-13  2
(AC186640) Phycomyces blakesleeanus clone JGIBOUU-41K22, com...    60   3e-05  1
(AQ025472) EP(X)1449 Drosophila melanogaster EP line Drosoph...    58   1e-04  1
(BH953409) odh91e02.g1 B.oleracea002 Brassica oleracea genom...    56   4e-04  1
(FD478574) 57F11T72 Ps-n cDNA Library Pseudo-nitzschia multi...    56   4e-04  1
(FD478573) 57F11T71 Ps-n cDNA Library Pseudo-nitzschia multi...    56   4e-04  1
(FD478572) 57F11M13r2 Ps-n cDNA Library Pseudo-nitzschia mul...    56   4e-04  1
(FD478571) 57F11M13r1 Ps-n cDNA Library Pseudo-nitzschia mul...    56   4e-04  1
(AF102580) Drosophila melanogaster 5'-phosphoribosylaminoimi...    54   0.002  1
(AE014298) Drosophila melanogaster chromosome X, complete se...    54   0.002  1
(AC104627) Drosophila melanogaster X BAC RP98-4A11 (Roswell ...    54   0.002  1
(AC023741) Drosophila melanogaster X BAC RP98-23O9 (Roswell ...    54   0.002  1
(AC120470) Rattus norvegicus clone CH230-225L3, WORKING DRAF...    54   0.002  1
(AC095741) Rattus norvegicus clone CH230-1G23, *** SEQUENCIN...    54   0.002  1
(AC095355) Rattus norvegicus clone CH230-1F23, *** SEQUENCIN...    54   0.002  1
(AC019992) Drosophila melanogaster, *** SEQUENCING IN PROGRE...    54   0.002  1
(EL473490) CHUL1411.b1_E18.ab1 CHU(LMS) puzzle sunflower Hel...    52   0.007  1
(CF060735) QCT13c04.yg QCT Zea mays cDNA clone QCT13c04, mRN...    52   0.007  1
(CF060647) QCT12a05.yg QCT Zea mays cDNA clone QCT12a05, mRN...    52   0.007  1
(CF060624) QCT11g02.yg QCT Zea mays cDNA clone QCT11g02, mRN...    52   0.007  1
(EY888088) TS27-C2-300-016-B12-CT.F Sunki mandarin bark, gre...    52   0.007  1
(EY790082) CR05-C3-700-132-A11-CT.F Mandarin fruit, developm...    52   0.007  1
(EY780321) CR05-C1-103-069-E06-CT.F Mandarin leaf, infected ...    52   0.007  1
(CU459021) Zebrafish DNA sequence from clone CH73-46J18 in l...    50   0.027  1
(AL953858) Zebrafish DNA sequence from clone CH211-121H11 in...    50   0.027  1
(AC106460) Rattus norvegicus clone CH230-208F23, *** SEQUENC...    50   0.027  1
(CR350785) mte1-85N24RM1 BAC end, cultivar Jemalong A17 of M...    50   0.027  1
(DK165446) Oryzias latipes cDNA, clone: olec21k22, 3' end.         50   0.027  1
(DK043287) Oryzias latipes cDNA, clone: olbr60p23, 3' end.         50   0.027  1
(AL382734) Medicago truncatula EST MtBC09F08F1 : T3 end of c...    50   0.027  1
(AJ503006) Medicago truncatula EST, clone mtgmadc120028d06.        50   0.027  1
(BJ908669) Oryzias latipes cDNA clone:MF01ALA025b06, 5' end.       50   0.027  1
(BJ517502) Oryzias latipes cDNA clone:MF01FSA039M11, 3' end ...    50   0.027  1
(BJ503593) Oryzias latipes cDNA clone:MF01FSA004A11, 3' end ...    50   0.027  1
(BJ487650) Oryzias latipes cDNA clone:MF01FSA004A11, 5' end ...    50   0.027  1
(BG450438) NF015E06DT1F1051 Drought Medicago truncatula cDNA...    50   0.027  1
(BF649099) NF055E07EC1F1053 Elicited cell culture Medicago t...    50   0.027  1
(BF644378) NF061A10EC1F1072 Elicited cell culture Medicago t...    50   0.027  1
(BF632851) NF045H09DT1F1080 Drought Medicago truncatula cDNA...    50   0.027  1
(BF632307) NF018C10DT1F1071 Drought Medicago truncatula cDNA...    50   0.027  1
(AG126188) Pan troglodytes DNA, clone: PTB-136K18.R.               34   0.080  2
(AL806528) Mouse DNA sequence from clone RP23-190C17 on chro...    48   0.10   1
(AC159435) Trypanosoma brucei chromosome 8 clone RPCI93-29H2...    48   0.10   1
(AC012373) Drosophila melanogaster, chromosome X, region 17B...    48   0.10   1
(AC128234) Rattus norvegicus clone CH230-501N19, WORKING DRA...    48   0.10   1
(AC103042) Rattus norvegicus clone CH230-223C20, *** SEQUENC...    48   0.10   1
(AL935266) Mouse DNA sequence *** SEQUENCING CANCELLED *** f...    48   0.10   1
(AC015313) Drosophila melanogaster, *** SEQUENCING IN PROGRE...    48   0.10   1
(AZ610218) 1M0435G20F Mouse 10kb plasmid UUGC1M library Mus ...    48   0.10   1
(AL405948) T7 end of clone AU0AA007C03 of library AU0AA from...    48   0.10   1
(BH793631) ME_MBa0001H22f Manihot esculenta Manihot esculent...    48   0.10   1
(DY298864) IC0AAA96DA07RM1 CitNFL Citrus clementina cDNA 5',...    48   0.10   1
(DY298348) IC0AAA95BD07RM1 CitNFL Citrus clementina cDNA 5',...    48   0.10   1
(DY294893) IC0AAA86DB10RM1 CitNFL Citrus clementina cDNA 5',...    48   0.10   1
(DY291995) IC0AAA79CG12RM1 CitNFL Citrus clementina cDNA 5',...    48   0.10   1
(DY282181) IC0AAA56AB08RM1 CitNFL Citrus clementina cDNA 5',...    48   0.10   1
(DY279712) IC0AAA4AF10RM1 CitNFL Citrus clementina cDNA 5', ...    48   0.10   1
(DY277548) IC0AAA44AG01RM1 CitNFL Citrus clementina cDNA 5',...    48   0.10   1
(DY268610) IC0AAA24CF12RM1 CitNFL Citrus clementina cDNA 5',...    48   0.10   1
(DW117199) CLRY5936.b1_P19.ab1 CLR(XYZ) lettuce serriola Lac...    48   0.10   1
(CN467844) CB_01_VR_017_C12_017_C12_06 Laminaria digitata pr...    48   0.10   1
(BJ526420) Oryzias latipes cDNA clone:MF01SSB020D13, 5' end ...    48   0.10   1
(FE889082) XYM5979.fwd XYM Monosiga brevicollis rapidly grow...    48   0.10   1
(FE889081) XYM5979.rev XYM Monosiga brevicollis rapidly grow...    48   0.10   1
(FD480109) A1A10M13r1 Ps-n cDNA Library Pseudo-nitzschia mul...    48   0.10   1
(EY738377) CS00-C3-705-042-F07-CT.F Sweet orange fruit, deve...    48   0.10   1
(EY737277) CS00-C3-705-029-B04-CT.F Sweet orange fruit, deve...    48   0.10   1
(EY701299) CS00-C3-700-109-E12-CT.F Sweet orange fruit, deve...    48   0.10   1
(EY678791) CS00-C1-401-051-D11-CT.F Sweet orange leaf, infec...    48   0.10   1
(EX848566) CBNC7469.rev CBNC Phycomyces blakesleeanus NRRL15...    48   0.10   1
(EY059983) CATF11889.fwd CATF Artemisia annua, Tanzanian, fr...    32   0.31   2
(EY059982) CATF11889.rev CATF Artemisia annua, Tanzanian, fr...    32   0.31   2
(AQ184034) HS_3224_A2_B02_MR CIT Approved Human Genomic Sper...    38   0.31   2
(CT573457) Zebrafish DNA sequence from clone CH211-214A19 in...    46   0.41   1
(CR388051) Zebrafish DNA sequence from clone CH211-239B6 in ...    46   0.41   1
(AL844884) Mouse DNA sequence from clone RP23-266B14 on chro...    46   0.41   1
(AL583884) Mouse DNA sequence from clone RP23-324B16 on chro...    46   0.41   1
(CR382129) Yarrowia lipolytica chromosome C of strain CLIB12...    46   0.41   1
(AP008211) Oryza sativa (japonica cultivar-group) genomic DN...    46   0.41   1
(AM444005) Vitis vinifera contig VV78X240536.5, whole genome...    46   0.41   1
(AC113333) Oryza sativa Japonica Group chromosome 5 clone OJ...    46   0.41   1
(EA679230) Sequence 58109 from patent US 7365185.                  46   0.41   1
(AC206148) Saccoglossus kowalevskii  BAC CUGI_SK_BA 001A6 (C...    46   0.41   1
(AC091911) Homo sapiens chromosome 5 clone RP11-211K15, comp...    46   0.41   1
(AC091857) Homo sapiens chromosome 5 clone CTD-2315L13, comp...    46   0.41   1
(AC026430) Homo sapiens chromosome 5 clone CTD-2216N22, comp...    46   0.41   1
(AC133066) Danio rerio strain Tue clone CH211-147D21, WORKIN...    46   0.41   1
(AC128395) Rattus norvegicus clone CH230-128B22, *** SEQUENC...    46   0.41   1
(AC120255) Rattus norvegicus clone CH230-489C24, WORKING DRA...    46   0.41   1
(AC111657) Rattus norvegicus clone CH230-129P19, *** SEQUENC...    46   0.41   1
(AC107430) Rattus norvegicus clone CH230-145H22, WORKING DRA...    46   0.41   1
(AC027149) Homo sapiens chromosome 18 clone RP11-94E2 map 18...    46   0.41   1
(FH914466) CHO_ONF002xb11r1.ab1 CHO_ONF Nicotiana tabacum ge...    46   0.41   1
(FH914376) CHO_ONF002xb11f1.ab1 CHO_ONF Nicotiana tabacum ge...    46   0.41   1
(ET020855) MUGQ_CH252P327H04T7_CP613_010 CHORI-252 Vervet Mo...    46   0.41   1
(DX945232) CHORI105-36G19.TF CHORI105.pEpiFOS5 Trypanosoma c...    46   0.41   1
(DU826786) FLAS_CR30-2002_05F11.T7M FLAS_CR30-2002 unculture...    46   0.41   1
(AL404104) T3 end of clone AT0AA013B12 of library AT0AA from...    46   0.41   1
(DH467718) Monosiga ovata DNA, fosmid clone: MOF-010N15, gen...    46   0.41   1
(CT559968) A BAC library has been constructed from cultivar ...    46   0.41   1

>(BJ334570) Dictyostelium discoideum cDNA clone:dda47b06, 5' end,
          single read.
          Length = 179

 Score = 81.8 bits (41), Expect(2) = 5e-13
 Identities = 41/41 (100%)
 Strand = Plus / Plus


Query: 32 ataaaactacacaagcacaagcacaaacacaaacacagaag 72
          |||||||||||||||||||||||||||||||||||||||||
Sbjct: 32 ataaaactacacaagcacaagcacaaacacaaacacagaag 72

 Score = 24.3 bits (12), Expect(2) = 5e-13
 Identities = 12/12 (100%)
 Strand = Plus / Plus


Query: 11 aattgtaataaa 22
          ||||||||||||
Sbjct: 11 aattgtaataaa 22

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 60,136,518
Number of extensions: 4772969
Number of successful extensions: 1375165
Number of sequences better than 10.0: 653
Length of query: 188
Length of database: 95,242,211,685
Length adjustment: 22
Effective length of query: 166
Effective length of database: 93,199,600,587
Effective search space: 15471133697442
Effective search space used: 15471133697442
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7. 4
Homology vs Protein 
Query= Contig-U12726-1 (Contig-U12726-1Q) /CSM_Contig/Contig-U12726-1Q.Seq.d
         (188 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: 87,688,600
Number of extensions: 1876302
Number of successful extensions: 194
Number of sequences better than 10.0: 0
Number of HSP's gapped: 194
Number of HSP's successfully gapped: 0
Length of query: 62
Length of database: 1,051,180,864
Length adjustment: 34
Effective length of query: 28
Effective length of database: 941,137,858
Effective search space: 26351860024
Effective search space used: 26351860024
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: 26 (14.6 bits)
PSORT 

 psg: 0.72  gvh: 0.17  alm: 0.65  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.00
 nuc: 0.41  erl: 0.00  erm: 0.40  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 

	 76.0 %: nuclear
	 16.0 %: cytoplasmic
	  4.0 %: mitochondrial
	  4.0 %: endoplasmic reticulum

>> prediction for Contig-U12726-1 is nuc
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) 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