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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-U14525-1
Contig ID Contig-U14525-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14525-1 (Contig-U14525-1Q) /CSM_Contig/Contig-U14525-1Q.Seq.d
ACACATATATCGCACACACACACAATACACACCGAGAAGTATTTGTGCAT
ATGAAATTAATAAGTTGCATAGTGATAGATATATGATTATCGTACGAAAA
TGAACACATCAATATCATCACCTTATCAAAGACATATTCTTACATCATCC
AGTACTGGTAGTGGAAGTAATAAAAAACCAATGATGGTCAACGATTTAAT
GGATAATGATAATAATAATAATATAACCTCAAACTCTACCAATAAGAATA
ATATTAATAATAAAAATATAAATAATAAAACAACAACAACAACAACCAAA
TGATCAATATATATCATCATATAGTTCAATTAATCAATTTAAAAGTCAAC
AACAGCAATCACCAACATCATCACCAATGAATTCATCTAGATTTAATAAT
AGTTTTAGTTATCAACAAGGTGAAGATAAATCATTTGAAGAATTAGAAAG
AGATAGATTAAATTTTAATTTTAAAGGAAGATTACAATCAAATTTAACAG
ATTTTAGTTTTGAACAACATCCATTTAAAGAAGATGATAAAAAGAAAAAG
AAACAACAACAATCACAACAAATACAACAACAACAACAACAACAAGAACA
AGAAGAATTTGGATATATTAGAC
Gap no gap
Contig length 623
Chromosome number (1..6, M) 3
Chromosome length 6358359
Start point 4624194
End point 4624817
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U14525
List of clone(s) 

est1=SFK261F,1,624
Translated Amino Acid sequence 
hiyrthtqytprsicayeinklhsdrymiivrk*thqyhhlikdiflhhpvlvveviknq
*wsti*wimiiiii*pqtlpiriiliiki*IIKQQQQQPNDQYISSYSSINQFKSQQQQS
PTSSPMNSSRFNNSFSYQQGEDKSFEELERDRLNFNFKGRLQSNLTDFSFEQHPFKEDDK
KKKKQQQSQQIQQQQQQQEQEEFGYIR
Translated Amino Acid sequence (All Frames) 
Frame A:
thishthtihtekylci*n**va***iydyrtkmntsisspyqrhiltssstgsgsnkkp
mmvndlmdndnnnnitsnstnknninnkninnkttttttk*siyiii*fn*si*ksttai
tniitnefi*i***f*lstr*r*ii*rirkr*ikf*f*rkitikfnrf*f*ttsi*rr**
keketttittntttttttrtrriwiy*


Frame B:
hiyrthtqytprsicayeinklhsdrymiivrk*thqyhhlikdiflhhpvlvveviknq
*wsti*wimiiiii*pqtlpiriiliiki*IIKQQQQQPNDQYISSYSSINQFKSQQQQS
PTSSPMNSSRFNNSFSYQQGEDKSFEELERDRLNFNFKGRLQSNLTDFSFEQHPFKEDDK
KKKKQQQSQQIQQQQQQQEQEEFGYIR


Frame C:
tyiahthnthrevfvhmkliscividi*lsyenehiniitlsktysyiiqyw*wk**ktn
dgqrfng******ynlklyq*e*y***kyk**nnnnnnqminiyhhivqlinlkvnnsnh
qhhhq*ihldliivlvinkvkinhlkn*keid*ililkedynqi*qilvlnnihlkkmik
rkrnnnnhnkynnnnnnknkknldild
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14525-1 (Contig-U14525-1Q)
/CSM_Contig/Contig-U14525-1Q.Seq.d
         (623 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14525-1 (Contig-U14525-1Q) /CSM_Contig/Conti...   470  e-133
Contig-U14904-1 (Contig-U14904-1Q) /CSM_Contig/Conti...   323  1e-88
Contig-U08910-1 (Contig-U08910-1Q) /CSM_Contig/Conti...    38  0.011
Contig-U04985-1 (Contig-U04985-1Q) /CSM_Contig/Conti...    38  0.011
Contig-U14332-1 (Contig-U14332-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U13670-1 (Contig-U13670-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U11489-1 (Contig-U11489-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U11260-1 (Contig-U11260-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U11236-1 (Contig-U11236-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U11130-1 (Contig-U11130-1Q) /CSM_Contig/Conti...    36  0.044

>Contig-U14525-1 (Contig-U14525-1Q) /CSM_Contig/Contig-U14525-1Q.Seq.d
          Length = 623

 Score =  470 bits (237), Expect = e-133
 Identities = 237/237 (100%)
 Strand = Plus / Plus

                                                                       
Query: 315 catcatatagttcaattaatcaatttaaaagtcaacaacagcaatcaccaacatcatcac 374
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 315 catcatatagttcaattaatcaatttaaaagtcaacaacagcaatcaccaacatcatcac 374

                                                                       
Query: 375 caatgaattcatctagatttaataatagttttagttatcaacaaggtgaagataaatcat 434
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 375 caatgaattcatctagatttaataatagttttagttatcaacaaggtgaagataaatcat 434

                                                                       
Query: 435 ttgaagaattagaaagagatagattaaattttaattttaaaggaagattacaatcaaatt 494
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 435 ttgaagaattagaaagagatagattaaattttaattttaaaggaagattacaatcaaatt 494

                                                                    
Query: 495 taacagattttagttttgaacaacatccatttaaagaagatgataaaaagaaaaaga 551
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 495 taacagattttagttttgaacaacatccatttaaagaagatgataaaaagaaaaaga 551


 Score =  323 bits (163), Expect = 1e-88
 Identities = 163/163 (100%)
 Strand = Plus / Plus

                                                                       
Query: 33  cgagaagtatttgtgcatatgaaattaataagttgcatagtgatagatatatgattatcg 92
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 33  cgagaagtatttgtgcatatgaaattaataagttgcatagtgatagatatatgattatcg 92

                                                                       
Query: 93  tacgaaaatgaacacatcaatatcatcaccttatcaaagacatattcttacatcatccag 152
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 93  tacgaaaatgaacacatcaatatcatcaccttatcaaagacatattcttacatcatccag 152

                                                      
Query: 153 tactggtagtggaagtaataaaaaaccaatgatggtcaacgat 195
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 153 tactggtagtggaagtaataaaaaaccaatgatggtcaacgat 195


 Score = 44.1 bits (22), Expect = 2e-04
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                 
Query: 602 gaagaatttggatatattagac 623
           ||||||||||||||||||||||
Sbjct: 602 gaagaatttggatatattagac 623


>Contig-U14904-1 (Contig-U14904-1Q) /CSM_Contig/Contig-U14904-1Q.Seq.d
          Length = 460

 Score =  323 bits (163), Expect = 1e-88
 Identities = 163/163 (100%)
 Strand = Plus / Plus

                                                                       
Query: 33  cgagaagtatttgtgcatatgaaattaataagttgcatagtgatagatatatgattatcg 92
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 25  cgagaagtatttgtgcatatgaaattaataagttgcatagtgatagatatatgattatcg 84

                                                                       
Query: 93  tacgaaaatgaacacatcaatatcatcaccttatcaaagacatattcttacatcatccag 152
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 85  tacgaaaatgaacacatcaatatcatcaccttatcaaagacatattcttacatcatccag 144

                                                      
Query: 153 tactggtagtggaagtaataaaaaaccaatgatggtcaacgat 195
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 145 tactggtagtggaagtaataaaaaaccaatgatggtcaacgat 187


>Contig-U08910-1 (Contig-U08910-1Q) /CSM_Contig/Contig-U08910-1Q.Seq.d
          Length = 1094

 Score = 38.2 bits (19), Expect = 0.011
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                              
Query: 427 taaatcatttgaagaatta 445
           |||||||||||||||||||
Sbjct: 131 taaatcatttgaagaatta 149


  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: 11,043
Number of Sequences: 6905
Number of extensions: 11043
Number of successful extensions: 1727
Number of sequences better than 10.0: 202
length of query: 623
length of database: 5,674,871
effective HSP length: 16
effective length of query: 607
effective length of database: 5,564,391
effective search space: 3377585337
effective search space used: 3377585337
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 2008.12.24
Homology vs DNA 
Query= Contig-U14525-1 (Contig-U14525-1Q) /CSM_Contig/Contig-U14525-1Q.Seq.d
         (623 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

(BJ390222) Dictyostelium discoideum cDNA clone:dds21i16, 5' ...   452   0.0    3
(AU265833) Dictyostelium discoideum vegetative cDNA clone:VS...   325   2e-85  2
(AU265832) Dictyostelium discoideum vegetative cDNA clone:VS...   325   2e-85  2
(BJ335425) Dictyostelium discoideum cDNA clone:dda50m03, 5' ...   325   3e-85  2
(AC214468) Populus trichocarpa clone POP038-L21, complete se...    40   0.054  4
(AF302064) Philotrypesis sp. PHILOTR cytochrome oxidase I (C...    36   0.072  3
(BG005108) CM2-GN0220-221100-544-f11 GN0220 Homo sapiens cDN...    50   0.096  1
(AC179640) Strongylocentrotus purpuratus clone R3-1025D19, W...    48   0.38   1
(BJ330627) Dictyostelium discoideum cDNA clone:dda32o03, 5' ...    36   0.61   2
(AC117176) Dictyostelium discoideum chromosome 2 map 5018074...    32   0.72   9
(EY337829) CAWY8594.fwd CAWY Helobdella robusta Subtracted E...    32   1.0    2
(EY296273) CAWX12715.rev CAWX Helobdella robusta Primary Ear...    32   1.1    2
(AL133544) Human DNA sequence from clone RP1-71N10 on chromo...    40   1.2    6
(AP008213) Oryza sativa (japonica cultivar-group) genomic DN...    46   1.5    1
(AP003803) Oryza sativa Japonica Group genomic DNA, chromoso...    46   1.5    1
(EA725312) Sequence 104191 from patent US 7365185.                 46   1.5    1
(EA688522) Sequence 67401 from patent US 7365185.                  46   1.5    1
(EA630989) Sequence 9868 from patent US 7365185.                   46   1.5    1
(AF052006) Dictyostelium discoideum C-module-binding factor ...    46   1.5    1
(CU179706) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   1.5    1
(AC179620) Strongylocentrotus purpuratus clone R3-1028I02, W...    46   1.5    1
(AC176504) Strongylocentrotus purpuratus clone R3-3072I13, W...    46   1.5    1
(AC176320) Strongylocentrotus purpuratus clone R3-3054H10, W...    46   1.5    1
(EK550961) 1095516115366 Global-Ocean-Sampling_GS-32-01-01-1...    46   1.5    1
(EJ147947) 1092343732216 Global-Ocean-Sampling_GS-27-01-01-1...    46   1.5    1
(DE167934) Bombyx mori genomic DNA, Fosmid clone:RO0315-H14_F.     46   1.5    1
(CC240586) CH261-118J11_Sp6.1 CH261 Gallus gallus genomic cl...    46   1.5    1
(EH106803) ia49b09.x1 mouse taste receptor cell, subtracted,...    46   1.5    1
(EB612061) AGENCOURT_56974264 D. grimshawi EST Drosophila gr...    46   1.5    1
(CO264706) EK140052.5prime Exelixis FlyTag CK01 pCDNA-SK+ Dr...    40   1.8    2
(CO276025) EK119451.5prime Exelixis FlyTag CK01 pCDNA-SK+ Dr...    40   1.8    2
(BC076682) Xenopus tropicalis MGC79669 protein, mRNA (cDNA c...    38   2.2    2
(AR547304) Sequence 2435 from patent US 6747137.                   44   2.3    2
(ER620886) 1093017407726 Global-Ocean-Sampling_GS-36-01-01-2...    42   3.0    2
(AX489500) Sequence 6800 from Patent WO02053728.                   44   3.6    2
(AC206921) Pongo abelii BAC clone CH276-528L3 from chromosom...    44   5.9    1
(CU469391) H.parasitica DNA sequence from clone HpEmoy2-16C24.     44   5.9    1
(AL356295) Human DNA sequence from clone RP11-768P11 on chro...    44   5.9    1
(AC152697) Bos taurus clone CH240-5J8, WORKING DRAFT SEQUENC...    44   5.9    1
(AC201500) Strongylocentrotus purpuratus clone R3-3074F20, W...    44   5.9    1
(AC179059) Strongylocentrotus purpuratus clone R3-4005J23, W...    44   5.9    1
(AC177428) Strongylocentrotus purpuratus clone R3-1031A22, W...    44   5.9    1
(AC171223) Bos taurus clone CH240-274H9, WORKING DRAFT SEQUE...    44   5.9    1
(BH167270) ENTRY26TR Entamoeba histolytica Sheared DNA Entam...    44   5.9    1
(DX378869) 3B_097_C14_RM1 Triticum aestivum chromosome 3B-sp...    44   5.9    1
(BZ025086) oeh07g12.g1 B.oleracea002 Brassica oleracea genom...    44   5.9    1
(ES711236) TFR5_53_B05_E001.g1 USDA-Tifton Peanut Library TF...    44   5.9    1
(ES704703) C20R5_36_C10_E002.g1 USDA-Tifton Peanut Library C...    44   5.9    1
(ES406819) MUT08-E02.y1d-s SHGC-MUT Mytilus californianus cD...    44   5.9    1
(ES402704) MUT07-L13.x1d-t SHGC-MUT Mytilus californianus cD...    44   5.9    1
(ES401815) MUT01-J08.y1d-s SHGC-MUT Mytilus californianus cD...    44   5.9    1
(ES401708) MUT07-L13.y1d-s SHGC-MUT Mytilus californianus cD...    44   5.9    1
(EG962623) AU_Ich_018C_C09 Whole organism normalized cDNA li...    44   5.9    1
(CK752099) eca01-7cs1-b11 Eca01 Eschscholzia californica cDN...    44   5.9    1
(EX637071) 256614551 Pea aphid whole body normalized full le...    44   5.9    1
(CP000770) Candidatus Sulcia muelleri GWSS, complete genome.       44   5.9    1
(AC021707) Homo sapiens clone RP11-397A12, WORKING DRAFT SEQ...    40   6.4    5
(BX914197) Zebrafish DNA sequence from clone DKEYP-81F11 in ...    36   8.7    4
(CZ774080) OC__Ba0132I24.r OC__Ba Oryza coarctata genomic cl...    38   9.1    2
(CZ774135) OC__Ba0132K05.f OC__Ba Oryza coarctata genomic cl...    38   9.4    2
(AP009923) Lotus japonicus genomic DNA, clone: LjT47H21, TM2...    34   10.0   4

>(BJ390222) Dictyostelium discoideum cDNA clone:dds21i16, 5' end,
           single read.
          Length = 624

 Score =  452 bits (228), Expect(3) = 0.0
 Identities = 228/228 (100%)
 Strand = Plus / Plus


Query: 324 gttcaattaatcaatttaaaagtcaacaacagcaatcaccaacatcatcaccaatgaatt 383
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 gttcaattaatcaatttaaaagtcaacaacagcaatcaccaacatcatcaccaatgaatt 383


Query: 384 catctagatttaataatagttttagttatcaacaaggtgaagataaatcatttgaagaat 443
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 catctagatttaataatagttttagttatcaacaaggtgaagataaatcatttgaagaat 443


Query: 444 tagaaagagatagattaaattttaattttaaaggaagattacaatcaaatttaacagatt 503
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 444 tagaaagagatagattaaattttaattttaaaggaagattacaatcaaatttaacagatt 503


Query: 504 ttagttttgaacaacatccatttaaagaagatgataaaaagaaaaaga 551
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 504 ttagttttgaacaacatccatttaaagaagatgataaaaagaaaaaga 551

 Score =  325 bits (164), Expect(3) = 0.0
 Identities = 164/164 (100%)
 Strand = Plus / Plus


Query: 33  cgagaagtatttgtgcatatgaaattaataagttgcatagtgatagatatatgattatcg 92
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 33  cgagaagtatttgtgcatatgaaattaataagttgcatagtgatagatatatgattatcg 92


Query: 93  tacgaaaatgaacacatcaatatcatcaccttatcaaagacatattcttacatcatccag 152
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 93  tacgaaaatgaacacatcaatatcatcaccttatcaaagacatattcttacatcatccag 152


Query: 153 tactggtagtggaagtaataaaaaaccaatgatggtcaacgatt 196
           ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 153 tactggtagtggaagtaataaaaaaccaatgatggtcaacgatt 196

 Score = 44.1 bits (22), Expect(3) = 0.0
 Identities = 22/22 (100%)
 Strand = Plus / Plus


Query: 602 gaagaatttggatatattagac 623
           ||||||||||||||||||||||
Sbjct: 602 gaagaatttggatatattagac 623

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 596,666,630
Number of extensions: 42325031
Number of successful extensions: 3998772
Number of sequences better than 10.0: 61
Length of query: 623
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 600
Effective length of database: 93,106,754,628
Effective search space: 55864052776800
Effective search space used: 55864052776800
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7.11
Homology vs Protein 
Query= Contig-U14525-1 (Contig-U14525-1Q) /CSM_Contig/Contig-U14525-1Q.Seq.d
         (623 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AE015927_331(AE015927|pid:none) Clostridium tetani E88, complete...    33   8.6

>AE015927_331(AE015927|pid:none) Clostridium tetani E88, complete
           genome.
          Length = 484

 Score = 32.7 bits (73), Expect = 8.6
 Identities = 17/49 (34%), Positives = 26/49 (53%)
 Frame = +3

Query: 9   IAHTHNTHREVFVHMKLISCIVIDI*LSYENEHINIITLSKTYSYIIQY 155
           +A  +N + E++V        +    L YENEHI IIT+ K Y+ +  Y
Sbjct: 125 VAKLNNINNELYV--------IFSYPLYYENEHIGIITIIKDYNQLYNY 165

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: 550,548,533
Number of extensions: 7755003
Number of successful extensions: 15039
Number of sequences better than 10.0: 1
Number of HSP's gapped: 15030
Number of HSP's successfully gapped: 1
Length of query: 207
Length of database: 1,051,180,864
Length adjustment: 123
Effective length of query: 84
Effective length of database: 653,084,107
Effective search space: 54859064988
Effective search space used: 54859064988
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: 0.83  gvh: 0.25  alm: 0.68  top: 0.53  tms: 0.00  mit: 0.38  mip: 0.08
 nuc: 0.08  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 

	 36.0 %: mitochondrial
	 28.0 %: nuclear
	 24.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for Contig-U14525-1 is mit
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) 1
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0