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Dicty_cDB
Contig List | Clone List | cDNA Library List
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Atlas | Atlas Image List
NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U14185-1
Contig ID Contig-U14185-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14185-1 (Contig-U14185-1Q) /CSM_Contig/Contig-U14185-1Q.Seq.d
CCACAAGAACANCAACAACAACAAGANCANCCACAACAACCACAAGAACA
ACAACAACAACCAAATGTAGTTGATGAAGCCAAGAGACCAAAGGAACAAC
AACAACAACCACAACAACAACAACAAACGATTGATAAGAAAGGTTATAAC
AATAATAGAAGAGGTGGTAGACACTATAGTTACAATAATAATTATAATAG
CCATCATCATAGACATAATGGAATAAATAAAAATAGTTCTTGCAATGTAT
ACATGATGAAAAAAGACACGAGGTTAAAACAGAACAAATAAATTAATAAA
ATAACCAA
Gap no gap
Contig length 308
Chromosome number (1..6, M) 5
Chromosome length 5062330
Start point 1775258
End point 1774950
Strand (PLUS/MINUS) MINUS
Number of clones 4
Number of EST 4
Link to clone list U14185
List of clone(s) 

est1=CFD509Z,-2,309
est2=CHC216Z,106,245
est3=CHB864Z,126,241
est4=CHB764Z,127,242
Translated Amino Acid sequence 
PQEXQQQQXXPQQPQEQQQQPNVVDEAKRPKEQQQQPQQQQQTIDKKGYNNNRRGGRHYS
YNNNYNSHHHRHNGINKNSSCNVYMMKKDTRLKQNK*inkit
Translated Amino Acid sequence (All Frames) 
Frame A:
PQEXQQQQXXPQQPQEQQQQPNVVDEAKRPKEQQQQPQQQQQTIDKKGYNNNRRGGRHYS
YNNNYNSHHHRHNGINKNSSCNVYMMKKDTRLKQNK*inkit


Frame B:
hknxnnnkxxhnnhknnnnnqm*lmkprdqrnnnnnhnnnnkrlirkvitiieevvdtiv
tiiiiiaiiidime*ikivlamyt**kktrg*nrtnklik*p


Frame C:
trtxtttrxxttttrtttttkcs**sqetkgttttttttttnd**erl*q**krw*tl*l
q**l**pss*t*wnk*k*flqcihdekrhevkteqin**nnq
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14185-1 (Contig-U14185-1Q)
/CSM_Contig/Contig-U14185-1Q.Seq.d
         (308 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14185-1 (Contig-U14185-1Q) /CSM_Contig/Conti...   361  e-100
Contig-U14028-1 (Contig-U14028-1Q) /CSM_Contig/Conti...    38  0.005
Contig-U11164-1 (Contig-U11164-1Q) /CSM_Contig/Conti...    38  0.005
Contig-U09764-1 (Contig-U09764-1Q) /CSM_Contig/Conti...    38  0.005
Contig-U06990-1 (Contig-U06990-1Q) /CSM_Contig/Conti...    38  0.005
Contig-U04398-1 (Contig-U04398-1Q) /CSM_Contig/Conti...    38  0.005
Contig-U01586-1 (Contig-U01586-1Q) /CSM_Contig/Conti...    38  0.005
Contig-U13287-1 (Contig-U13287-1Q) /CSM_Contig/Conti...    36  0.021
Contig-U10135-1 (Contig-U10135-1Q) /CSM_Contig/Conti...    36  0.021
Contig-U13576-1 (Contig-U13576-1Q) /CSM_Contig/Conti...    30  1.3

>Contig-U14185-1 (Contig-U14185-1Q) /CSM_Contig/Contig-U14185-1Q.Seq.d
          Length = 308

 Score =  361 bits (182), Expect = e-100
 Identities = 182/182 (100%)
 Strand = Plus / Plus

                                                                       
Query: 127 acgattgataagaaaggttataacaataatagaagaggtggtagacactatagttacaat 186
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 127 acgattgataagaaaggttataacaataatagaagaggtggtagacactatagttacaat 186

                                                                       
Query: 187 aataattataatagccatcatcatagacataatggaataaataaaaatagttcttgcaat 246
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 187 aataattataatagccatcatcatagacataatggaataaataaaaatagttcttgcaat 246

                                                                       
Query: 247 gtatacatgatgaaaaaagacacgaggttaaaacagaacaaataaattaataaaataacc 306
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 247 gtatacatgatgaaaaaagacacgaggttaaaacagaacaaataaattaataaaataacc 306

             
Query: 307 aa 308
           ||
Sbjct: 307 aa 308


 Score = 65.9 bits (33), Expect = 2e-11
 Identities = 33/33 (100%)
 Strand = Plus / Plus

                                           
Query: 62 caaatgtagttgatgaagccaagagaccaaagg 94
          |||||||||||||||||||||||||||||||||
Sbjct: 62 caaatgtagttgatgaagccaagagaccaaagg 94


>Contig-U14028-1 (Contig-U14028-1Q) /CSM_Contig/Contig-U14028-1Q.Seq.d
          Length = 729

 Score = 38.2 bits (19), Expect = 0.005
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 286 aaataaattaataaaataa 304
           |||||||||||||||||||
Sbjct: 680 aaataaattaataaaataa 698


 Score = 32.2 bits (16), Expect = 0.33
 Identities = 16/16 (100%)
 Strand = Plus / Plus

                           
Query: 289 taaattaataaaataa 304
           ||||||||||||||||
Sbjct: 670 taaattaataaaataa 685


>Contig-U11164-1 (Contig-U11164-1Q) /CSM_Contig/Contig-U11164-1Q.Seq.d
          Length = 666

 Score = 38.2 bits (19), Expect = 0.005
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 286 aaataaattaataaaataa 304
           |||||||||||||||||||
Sbjct: 20  aaataaattaataaaataa 38


 Score = 34.2 bits (17), Expect = 0.083
 Identities = 17/17 (100%)
 Strand = Plus / Plus

                            
Query: 222 aataaataaaaatagtt 238
           |||||||||||||||||
Sbjct: 39  aataaataaaaatagtt 55


  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: 8353
Number of Sequences: 6905
Number of extensions: 8353
Number of successful extensions: 3275
Number of sequences better than 10.0: 615
length of query: 308
length of database: 5,674,871
effective HSP length: 15
effective length of query: 293
effective length of database: 5,571,296
effective search space: 1632389728
effective search space used: 1632389728
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 2008.12.19
Homology vs DNA 
Query= Contig-U14185-1 (Contig-U14185-1Q) /CSM_Contig/Contig-U14185-1Q.Seq.d
         (308 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

(BJ374464) Dictyostelium discoideum cDNA clone:ddc8a03, 3' e...   357   1e-94  1
(BJ347354) Dictyostelium discoideum cDNA clone:dda26i22, 3' ...   224   1e-65  3
(BJ377860) Dictyostelium discoideum cDNA clone:ddc26o04, 3' ...   125   1e-32  2
(BJ377748) Dictyostelium discoideum cDNA clone:ddc25p15, 3' ...   141   2e-29  1
(BJ377749) Dictyostelium discoideum cDNA clone:ddc25p16, 3' ...   123   4e-24  1
(AC122012) Mus musculus BAC clone RP24-353N4 from 5, complet...    52   0.012  1
(AC147607) Mus musculus chromosome UNK clone RP23-448F11, WO...    52   0.012  1
(CT954263) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   0.017  4
(AC115607) Dictyostelium discoideum chromosome 2 map 4559693...    36   0.030  2
(CR522881) Zebrafish DNA sequence from clone DKEY-22P6 in li...    50   0.045  1
(CR394563) Zebrafish DNA sequence from clone CH211-147P18.         50   0.045  1
(AC163629) Mus musculus BAC clone RP24-542G7 from chromosome...    50   0.045  1
(AC117634) Mus musculus chromosome 17 clone RP23-202G20 map ...    50   0.045  1
(AY301264) Mus musculus strain C57BL/6J chromosome 17 clone ...    50   0.045  1
(AZ855761) 2M0159L21R Mouse 10kb plasmid UUGC1M library Mus ...    50   0.045  1
(EF746832) Mus musculus C57BL/6N IST10194F7HMF1 gene trap em...    50   0.045  1
(EF732170) Mus musculus C57BL/6N IST10256E4HMF1 gene trap em...    50   0.045  1
(AC117081) Dictyostelium discoideum chromosome 2 map 5862124...    40   0.074  5
(AC173228) Bos taurus clone CH240-525N15, WORKING DRAFT SEQU...    40   0.12   2
(AC224112) Bos taurus clone CH240-449F4, WORKING DRAFT SEQUE...    46   0.13   2
(AC225834) Macaca mulatta  BAC CH250-127N8 (Children's Hospi...    42   0.14   2
(CT956062) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    36   0.15   4
(AC133055) Rattus norvegicus clone CH230-49E19, WORKING DRAF...    48   0.18   1
(AC096705) Rattus norvegicus clone CH230-2I8, WORKING DRAFT ...    48   0.18   1
(AL844507) Plasmodium falciparum chromosome 8.                     48   0.18   1
(AL954666) Zebrafish DNA sequence from clone CH211-81I19 in ...    44   0.19   3
(AC221648) Bos taurus clone CH240-389O3, WORKING DRAFT SEQUE...    40   0.20   3
(CR925792) Zebrafish DNA sequence from clone DKEY-255G15 in ...    44   0.24   3
(BB226140) Mus musculus adult male aorta and vein cDNA, RIKE...    36   0.26   2
(CU313308) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    40   0.27   3
(EU369761) Carica papaya male Y chromosme BAC clone DM62K05,...    38   0.27   3
(CU179754) Zebrafish DNA sequence from clone CH211-188B5.          36   0.29   4
(AC123417) Rattus norvegicus clone CH230-195F22, WORKING DRA...    38   0.35   3
(CT027676) Zebrafish DNA sequence from clone CH211-134J11 in...    36   0.42   3
(AX345369) Sequence 440 from Patent WO0200928.                     42   0.48   3
(EF661025) Carica papaya clone BAC PH95B12, complete sequence.     38   0.56   3
(AC127892) Rattus norvegicus clone CH230-202J9, *** SEQUENCI...    44   0.61   2
(BX649552) Zebrafish DNA sequence from clone CH211-91I13 in ...    44   0.67   3
(AL929340) Zebrafish DNA sequence from clone CH211-248N16 in...    46   0.71   1
(CR940347) Theileria annulata genomic DNA chromosome 1 part 1.     46   0.71   1
(CR385045) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    46   0.71   1
(AC189849) Sorex araneus clone SA_Ba-465I23, WORKING DRAFT S...    46   0.71   1
(DU060531) 40274 Tomato HindIII BAC Library Solanum lycopers...    46   0.71   1
(CE525876) tigr-gss-dog-17000365761894 Dog Library Canis lup...    46   0.71   1
(AE014832) Plasmodium falciparum 3D7 chromosome 10 section 4...    34   0.71   5
(CR854857) Zebrafish DNA sequence from clone CH211-129F7 in ...    36   0.72   3
(CT030037) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    38   0.73   4
(AL049183) Plasmodium falciparum DNA *** SEQUENCING IN PROGR...    42   0.74   4
(BX649294) Zebrafish DNA sequence from clone CH211-223C9 in ...    44   0.78   4
(AL109815) Plasmodium falciparum DNA *** SEQUENCING IN PROGR...    36   0.80   4
(CU694499) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    36   0.86   3
(AC006281) Plasmodium falciparum chromosome 12 clone 3D7, **...    34   0.94   6
(AL161545) Arabidopsis thaliana DNA chromosome 4, contig fra...    38   0.94   3
(Z97342) Arabidopsis thaliana DNA chromosome 4, ESSA I FCA c...    38   0.96   3
(AC171131) Helobdella robusta clone CH306-1A2, complete sequ...    40   0.98   3
(AC215562) Tupaia belangeri clone CH275-587L2, WORKING DRAFT...    40   1.0    5
(AC115584) Dictyostelium discoideum chromosome 2 map complem...    38   1.2    3
(CR356221) Zebrafish DNA sequence from clone CH211-189F14 in...    40   1.2    3
(CU459157) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    34   1.4    2
(CR352297) Zebrafish DNA sequence from clone CH211-165L15 in...    34   1.5    2
(AC117076) Dictyostelium discoideum chromosome 2 map 3323568...    34   1.5    2
(BX323053) Zebrafish DNA sequence from clone DKEYP-53E9 in l...    32   1.5    2
(AC186111) Atelerix albiventris clone LB4-518J7, WORKING DRA...    38   1.6    2
(CR381579) Zebrafish DNA sequence from clone CH211-229N1 in ...    36   1.6    3
(AC183385) Pan troglodytes BAC clone CH251-277F20 from chrom...    42   1.6    2
(AL979320) Danio rerio genomic clone DKEY-35D1, genomic surv...    34   1.8    2
(AC129065) Didelphis virginiana clone LB3-118L8, complete se...    42   1.8    2
(CS452618) Sequence 18 from Patent WO2006119494.                   38   1.8    4
(AC092648) Homo sapiens BAC clone RP11-421N10 from 7, comple...    42   1.8    2
(EU100900) Apis cerana isolate Cer027Maly complementary sex ...    32   1.9    2
(EY438690) CBAY2731.fwd CBAY Tubifex tubifex Embryos and juv...    32   1.9    2
(EY438689) CBAY2731.rev CBAY Tubifex tubifex Embryos and juv...    32   1.9    2
(BJ360033) Dictyostelium discoideum cDNA clone:ddc3k22, 5' e...    32   1.9    2
(BJ363719) Dictyostelium discoideum cDNA clone:ddc28j02, 5' ...    32   1.9    2
(BJ361242) Dictyostelium discoideum cDNA clone:ddc16k10, 5' ...    32   1.9    2
(BJ389235) Dictyostelium discoideum cDNA clone:dds18e02, 5' ...    32   1.9    2
(CW952366) TcB38.1_E10_SP6 Tribolium BAC library Tribolium c...    32   1.9    3
(BJ389215) Dictyostelium discoideum cDNA clone:dds17o23, 5' ...    32   1.9    2
(BJ358494) Dictyostelium discoideum cDNA clone:ddc1f21, 5' e...    32   1.9    2
(BJ370564) Dictyostelium discoideum cDNA clone:ddc54h13, 5' ...    32   1.9    2
(FE186729) LV_NC_RA42D11f Litopenaeus vannamei nerve cord cD...    34   2.0    2
(ET088285) QM0AAA12BB05FM1 CCL1 Citrus clementina genomic cl...    38   2.0    2
(AU060791) Dictyostelium discoideum slug cDNA, clone SLB506.       32   2.0    2
(CE701970) tigr-gss-dog-17000368968695 Dog Library Canis lup...    36   2.0    2
(AC158436) Didelphis virginiana clone LB3-258H20, WORKING DR...    42   2.0    2
(AU261986) Dictyostelium discoideum vegetative cDNA clone:VS...    32   2.0    2
(AC176212) Strongylocentrotus purpuratus clone R3-3063L12, W...    38   2.0    3
(CU694964) Zebrafish DNA sequence from clone ZFOS-2103B8 in ...    40   2.1    3
(CT955993) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    38   2.1    4
(ET088446) QM0AAA12CB05FM1 CCL1 Citrus clementina genomic cl...    38   2.1    2
(AC152811) Bos taurus clone CH240-11F20, WORKING DRAFT SEQUE...    42   2.2    4
(EI485204) PV_GBa0099D15.f PV_GBa Phaseolus vulgaris genomic...    38   2.2    2
(EJ040691) 1095454088817 Global-Ocean-Sampling_GS-26-01-01-1...    34   2.4    2
(AC118412) Rattus norvegicus clone CH230-221E17, WORKING DRA...    40   2.4    2
(AC202215) Acyrthosiphon pisum  BAC VMRC38-20-A10 (Benaroya ...    36   2.4    4
(EV839373) TT1ES38TV Tetrahymena thermophila SB210 cDNA libr...    38   2.4    2
(EC273199) TT1CO90TV Tetrahymena thermophila SB210 cDNA libr...    36   2.5    2
(ER796105) POTK349TF Solanum tuberosum RHPOTKEY BAC ends Sol...    38   2.5    2
(FF295429) 279306229 Pea aphid whole body normalized full le...    34   2.5    2
(AJ404228) Saccharomyces douglasii mitochondrial tRNA gene c...    34   2.5    3

>(BJ374464) Dictyostelium discoideum cDNA clone:ddc8a03, 3' end,
           single read.
          Length = 312

 Score =  357 bits (180), Expect = 1e-94
 Identities = 180/180 (100%)
 Strand = Plus / Minus


Query: 129 gattgataagaaaggttataacaataatagaagaggtggtagacactatagttacaataa 188
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 gattgataagaaaggttataacaataatagaagaggtggtagacactatagttacaataa 122


Query: 189 taattataatagccatcatcatagacataatggaataaataaaaatagttcttgcaatgt 248
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 taattataatagccatcatcatagacataatggaataaataaaaatagttcttgcaatgt 62


Query: 249 atacatgatgaaaaaagacacgaggttaaaacagaacaaataaattaataaaataaccaa 308
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  atacatgatgaaaaaagacacgaggttaaaacagaacaaataaattaataaaataaccaa 2

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 290,426,114
Number of extensions: 23510692
Number of successful extensions: 2377332
Number of sequences better than 10.0: 299
Length of query: 308
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 285
Effective length of database: 93,106,754,628
Effective search space: 26535425068980
Effective search space used: 26535425068980
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.10
Homology vs Protein 
Query= Contig-U14185-1 (Contig-U14185-1Q) /CSM_Contig/Contig-U14185-1Q.Seq.d
         (308 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CP000678_1266(CP000678|pid:none) Methanobrevibacter smithii ATCC...    33   4.1

>CP000678_1266(CP000678|pid:none) Methanobrevibacter smithii ATCC
           35061, complete genome.
          Length = 347

 Score = 32.7 bits (73), Expect = 4.1
 Identities = 12/22 (54%), Positives = 19/22 (86%)
 Frame = -1

Query: 308 LVILLIYLFCFNLVSFFIMYTL 243
           L+I+L YLF FN++ F+I++TL
Sbjct: 91  LLIILFYLFSFNIIIFYILFTL 112

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: 207,067,951
Number of extensions: 2061734
Number of successful extensions: 2853
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2853
Number of HSP's successfully gapped: 1
Length of query: 102
Length of database: 1,051,180,864
Length adjustment: 70
Effective length of query: 32
Effective length of database: 824,621,734
Effective search space: 26387895488
Effective search space used: 26387895488
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: 0.75  gvh: 0.09  alm: 0.74  top: 0.53  tms: 0.00  mit: 0.18  mip: 0.09
 nuc: 0.03  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: 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 %: nuclear
	 28.0 %: cytoplasmic
	 16.0 %: cytoskeletal
	 12.0 %: mitochondrial

>> prediction for Contig-U14185-1 is nuc
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) 3
CF (FL, S) 1
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0