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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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-U05782-1
Contig ID Contig-U05782-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U05782-1 (Contig-U05782-1Q) /CSM_Contig/Contig-U05782-1Q.Seq.d
CAAAAGAAAAGAAACCATATTGAAATTGTAGATTTAATAGCAACTTCAAT
AAAAGTTAAAAATTTATTAGCATTTGATCTTTTCTTTAATCATTTACAAT
TACCAATTTATACAAGATTAAAATGATAAATCTTTAAAATATGCAACAAA
AATAATAAAACATAATCAANTATTATCATTTCAATTTTTAAATATTATAN
TAAATAATCAATTATATAATAAAAATAATAATAATAATAATAATAATAAT
AANAATCAATAATAATCAACTAAAAAAAGATGAAGAATATGAAGATGAAA
ATGAATATAGTATTAATAAAGAAATAAATAAATAATTAAAGAAACAAACA
GAATTAACTACAACAACAACAACAACAACAACAACAACAACAACCCCAAC
AAGTAAATCATTAGCATCTTCACTTTATTTAATAAAGTTTAAAGATTTTT
ATGNGGTTAAAAGATTTATAGAGAATTTCAAATTAGATTAATAGAATTAG
GATTANTAGAGAAAACAAATAAAATTACATTAANNTTCAGAATTTGAAAA
TAACAATACAACATTTAAATCANTATCAATTCAAGATTTAATAANTNTAT
TTAAAATCACTTTATCAATTATGTGATAAT
Gap no gap
Contig length 630
Chromosome number (1..6, M) 5
Chromosome length 5062330
Start point 2582254
End point 2581624
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U05782
List of clone(s) 

est1=SSL544F,1,631
Translated Amino Acid sequence 
kekkpy*ncrfnsnfnks*kfisi*sfl*sftitnlykikminl*nmqqk**niixyyhf
nf*ilx*iinyiikiiiiiiiiixinnnqlkkdeeyedeneysinkeink*LKKQTELTT
TTTTTTTTTTTPTSKSLASSLYLIKFKDFYXVKRFIENFKLD**n*dx*rkqiklh*xse
fennnttfksxsiqdlixxfkitlsim**
Translated Amino Acid sequence (All Frames) 
Frame A:
qkkrnhieivdliatsikvknllafdlffnhlqlpiytrlk**ifkicnknnkt*sxiii
sifkyyxk*sii**k*********xsiiin*kkmknmkmkmnivlikk*inn*rnkqn*l
qqqqqqqqqqqpqqvnh*hlhfi**slkifmxlkdl*risn*inririxrenk*nyixxq
nlkitiqhlnxyqfki**xylkslyqlcdn


Frame B:
krketilkl*i**qlq*klkiy*hlifsliiynyqfiqd*ndkslkyatkiikhnqxlsf
qflniixnnqlynknnnnnnnnnxnq**stkkr*ri*r*k*i*y**rnk*iiketnriny
nnnnnnnnnnnpnk*iisiftlfnkv*rflxg*kiyrefqirlielglxektnkitlxfr
i*k*qyni*ixinsrfnxxi*nhfinyvi


Frame C:
kekkpy*ncrfnsnfnks*kfisi*sfl*sftitnlykikminl*nmqqk**niixyyhf
nf*ilx*iinyiikiiiiiiiiixinnnqlkkdeeyedeneysinkeink*LKKQTELTT
TTTTTTTTTTTPTSKSLASSLYLIKFKDFYXVKRFIENFKLD**n*dx*rkqiklh*xse
fennnttfksxsiqdlixxfkitlsim**
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U05782-1 (Contig-U05782-1Q)
/CSM_Contig/Contig-U05782-1Q.Seq.d
         (630 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U05782-1 (Contig-U05782-1Q) /CSM_Contig/Conti...   410  e-115
Contig-U03326-1 (Contig-U03326-1Q) /CSM_Contig/Conti...    38  0.011
Contig-U12426-1 (Contig-U12426-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U10808-1 (Contig-U10808-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U09602-1 (Contig-U09602-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U06332-1 (Contig-U06332-1Q) /CSM_Contig/Conti...    36  0.044
Contig-U14801-1 (Contig-U14801-1Q) /CSM_Contig/Conti...    34  0.17
Contig-U14772-1 (Contig-U14772-1Q) /CSM_Contig/Conti...    34  0.17
Contig-U14175-1 (Contig-U14175-1Q) /CSM_Contig/Conti...    34  0.17
Contig-U12038-1 (Contig-U12038-1Q) /CSM_Contig/Conti...    34  0.17

>Contig-U05782-1 (Contig-U05782-1Q) /CSM_Contig/Contig-U05782-1Q.Seq.d
          Length = 630

 Score =  410 bits (207), Expect = e-115
 Identities = 228/228 (100%)
 Strand = Plus / Plus

                                                                       
Query: 403 gtaaatcattagcatcttcactttatttaataaagtttaaagatttttatgnggttaaaa 462
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 403 gtaaatcattagcatcttcactttatttaataaagtttaaagatttttatgnggttaaaa 462

                                                                       
Query: 463 gatttatagagaatttcaaattagattaatagaattaggattantagagaaaacaaataa 522
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 463 gatttatagagaatttcaaattagattaatagaattaggattantagagaaaacaaataa 522

                                                                       
Query: 523 aattacattaannttcagaatttgaaaataacaatacaacatttaaatcantatcaattc 582
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 523 aattacattaannttcagaatttgaaaataacaatacaacatttaaatcantatcaattc 582

                                                           
Query: 583 aagatttaataantntatttaaaatcactttatcaattatgtgataat 630
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 583 aagatttaataantntatttaaaatcactttatcaattatgtgataat 630


 Score =  319 bits (161), Expect = 2e-87
 Identities = 161/161 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   caaaagaaaagaaaccatattgaaattgtagatttaatagcaacttcaataaaagttaaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   caaaagaaaagaaaccatattgaaattgtagatttaatagcaacttcaataaaagttaaa 60

                                                                       
Query: 61  aatttattagcatttgatcttttctttaatcatttacaattaccaatttatacaagatta 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  aatttattagcatttgatcttttctttaatcatttacaattaccaatttatacaagatta 120

                                                    
Query: 121 aaatgataaatctttaaaatatgcaacaaaaataataaaac 161
           |||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 aaatgataaatctttaaaatatgcaacaaaaataataaaac 161


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

                              
Query: 341 gaaacaaacagaattaact 359
           |||||||||||||||||||
Sbjct: 341 gaaacaaacagaattaact 359


>Contig-U03326-1 (Contig-U03326-1Q) /CSM_Contig/Contig-U03326-1Q.Seq.d
          Length = 1135

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

                              
Query: 77  atcttttctttaatcattt 95
           |||||||||||||||||||
Sbjct: 309 atcttttctttaatcattt 327


>Contig-U12426-1 (Contig-U12426-1Q) /CSM_Contig/Contig-U12426-1Q.Seq.d
          Length = 1761

 Score = 36.2 bits (18), Expect = 0.044
 Identities = 18/18 (100%)
 Strand = Plus / Minus

                             
Query: 78  tcttttctttaatcattt 95
           ||||||||||||||||||
Sbjct: 911 tcttttctttaatcattt 894


  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: 12,247
Number of Sequences: 6905
Number of extensions: 12247
Number of successful extensions: 1664
Number of sequences better than 10.0: 108
length of query: 630
length of database: 5,674,871
effective HSP length: 16
effective length of query: 614
effective length of database: 5,564,391
effective search space: 3416536074
effective search space used: 3416536074
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. 6
Homology vs DNA 
Query= Contig-U05782-1 (Contig-U05782-1Q) /CSM_Contig/Contig-U05782-1Q.Seq.d
         (630 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

(AU074685) Dictyostelium discoideum slug cDNA, clone SSL544.      335   1e-87  1
(AL360157) Human DNA sequence from clone RP11-801I18 on chro...    40   0.006  7
(AC107788) Mus musculus clone RP23-412A7, WORKING DRAFT SEQU...    36   0.087  8
(CX590040) TTE00027247 Amplicon Express - Conjugative Form T...    50   0.097  1
(DQ904399) Plasmodium berghei guanylate cyclase beta gene, c...    36   0.25   2
(CR855260) Zebrafish DNA sequence from clone DKEY-151C10 in ...    38   0.32   3
(DX552159) GH_MBb0042M09r GH_MBb Gossypium hirsutum genomic ...    44   0.35   2
(CR392340) Zebrafish DNA sequence from clone DKEY-23G12 in l...    48   0.38   1
(BX649436) Zebrafish DNA sequence from clone DKEYP-50F7 in l...    48   0.38   1
(AC087240) Homo sapiens 12p BAC RP11-752F20 (Roswell Park Ca...    48   0.38   1
(CU469578) Zebrafish DNA sequence *** SEQUENCING CANCELLED *...    48   0.38   1
(BX942827) Zebrafish DNA sequence *** SEQUENCING CANCELLED *...    48   0.38   1
(BM773529) ra83a04.y1 Meloidogyne incognita egg pAMP1 Bird M...    48   0.38   1
(AC023395) Homo sapiens chromosome 18, clone RP11-484N16, co...    44   0.42   3
(AC112106) Rattus norvegicus clone CH230-78O16, WORKING DRAF...    42   0.48   5
(CU179722) Pig DNA sequence from clone CH242-231H4 on chromo...    42   0.49   4
(AC148151) Monodelphis domestica clone VMRC6-414K6, complete...    36   0.53   6
(CP000770) Candidatus Sulcia muelleri GWSS, complete genome.       32   0.54   9
(FI019045) CHO_OF6924xl02f1.ab1 CHO_OF6 Nicotiana tabacum ge...    44   0.67   2
(AC118276) Homo sapiens BAC clone RP11-115F20 from 2, comple...    44   0.73   3
(AC122664) Rattus norvegicus clone CH230-46B13, *** SEQUENCI...    32   0.79   2
(AC097848) Rattus norvegicus clone CH230-95N22, *** SEQUENCI...    32   0.79   2
(AC134218) Rattus norvegicus clone CH230-61E7, *** SEQUENCIN...    32   0.79   2
(AC109233) Mus musculus chromosome 16, clone RP23-219N5, com...    34   0.96   8
(BX666064) Zebrafish DNA sequence from clone DKEY-6N3 in lin...    44   1.1    5
(AC068048) Homo sapiens BAC clone RP11-263D19 from 2, comple...    32   1.2    8
(CU570807) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    34   1.2    8
(AL929357) Plasmodium falciparum strain 3D7, chromosome 9; s...    36   1.3    10
(CR394540) Zebrafish DNA sequence from clone DKEYP-10E10 in ...    42   1.4    3
(AC096984) Rattus norvegicus clone CH230-200G23, *** SEQUENC...    44   1.4    4
(AC123298) Rattus norvegicus  BAC CH230-352N4 (Children's Ho...    46   1.5    1
(AC191233) Pan troglodytes BAC clone CH251-500L12 from chrom...    46   1.5    1
(AC147086) Pan troglodytes BAC clone RP43-58O23 from chromos...    46   1.5    1
(AM436459) Vitis vinifera contig VV78X089778.10, whole genom...    46   1.5    1
(AC099551) Homo sapiens BAC clone RP11-685O3 from 7, complet...    46   1.5    1
(AC146105) Pan troglodytes chromosome UNK clone RP43-38P4, *...    46   1.5    1
(CU855499) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   1.5    1
(ET085595) QM0AAC8BG01FM1 CCH3 Citrus clementina genomic clo...    46   1.5    1
(ER515979) 1093015516411 Global-Ocean-Sampling_GS-35-01-01-1...    46   1.5    1
(ER495726) 1093015346813 Global-Ocean-Sampling_GS-35-01-01-1...    46   1.5    1
(DU092429) 106717 Tomato HindIII BAC Library Solanum lycoper...    46   1.5    1
(CU846861) A BAC library has been constructed from PN40024 g...    46   1.5    1
(CL039878) CH216-48L7_Sp6.1 CH216 Xenopus (Silurana) tropica...    46   1.5    1
(EL899351) CGF2003979_C08 WRN-02:  Walnut root infected with...    46   1.5    1
(EL897690) CGF2002751_H03 WRN-02:  Walnut root infected with...    46   1.5    1
(BM163297) EST565820 PyBS Plasmodium yoelii yoelii cDNA clon...    46   1.5    1
(FF996460) CBWU113080.b1 Yutaka Satou unpublished cDNA libra...    46   1.5    1
(AY247951) Plasmodium berghei von Willerbrand factor A domai...    42   1.5    2
(AL590146) Zebrafish DNA sequence from clone RP71-20I5 in li...    34   1.8    6
(AC117070) Dictyostelium discoideum chromosome 2 map 2097701...    34   1.9    8
(BX293980) Mycoplasma mycoides subsp. mycoides SC str. PG1, ...    34   1.9    16
(CS592338) Sequence 32 from Patent WO2007039128.                   36   2.5    3
(CS592322) Sequence 16 from Patent WO2007039128.                   36   2.5    3
(BX901937) Zebrafish DNA sequence from clone DKEY-9I23 in li...    40   2.5    5
(AF063866) Melanoplus sanguinipes entomopoxvirus, complete g...    30   2.5    10
(BX248583) Blochmannia floridanus complete genome.                 32   2.7    2
(BX004964) Zebrafish DNA sequence from clone DKEY-7I4.             40   2.7    5
(AC187546) Gossypium hirsutum chromosome UNKNOWN clone ZMMBB...    38   2.8    5
(AC121197) Rattus norvegicus clone CH230-24F15, *** SEQUENCI...    34   2.9    2
(AE014847) Plasmodium falciparum 3D7 chromosome 12, section ...    32   2.9    2
(CR855277) Zebrafish DNA sequence from clone DKEY-71B5 in li...    32   2.9    2
(CT573086) Mouse DNA sequence from clone RP23-163K5 on chrom...    34   2.9    2
(AC121676) Rattus norvegicus clone CH230-509I18, *** SEQUENC...    34   2.9    2
(AC170705) Oryctolagus cuniculus clone LB1-210P1, WORKING DR...    32   2.9    2
(AC009966) Homo sapiens chromosome 22 clone RP11-389H23, WOR...    32   2.9    2
(AC004709) Plasmodium falciparum chromosome 12, *** SEQUENCI...    32   2.9    2
(AC186939) Callicebus moloch clone LB5-303P19, WORKING DRAFT...    32   2.9    2
(EI935021) VUH2-78B20TR VUUBBa (VUH2) Vigna unguiculata geno...    34   2.9    2
(CU019597) Mouse DNA sequence *** SEQUENCING IN PROGRESS ***...    34   2.9    2
(AC165386) Oryctolagus cuniculus clone LB1-13H23, WORKING DR...    32   3.0    2
(AC006280) Plasmodium falciparum chromosome 12 clone 3D7, **...    32   3.0    2
(AP003155) Mus musculus genomic DNA, chromosome 16q clone:RP...    34   3.0    2
(AL935272) Zebrafish DNA sequence from clone CH211-266K22 in...    32   3.0    2
(BX899179) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    32   3.0    2
(BX890614) Zebrafish DNA sequence from clone DKEY-46N5 in li...    32   3.0    2
(BX469905) Zebrafish DNA sequence from clone CH211-160B7 in ...    32   3.0    2
(AC092643) Homo sapiens BAC clone RP11-393P9 from 4, complet...    36   3.1    5
(AC112550) Rattus norvegicus clone CH230-233P6, *** SEQUENCI...    38   3.1    5
(FG087299) CMRC-FF-IH0-acg-l-23-0-CMRC.r1 Ceratitis capitata...    38   3.1    2
(AC155673) Bos taurus clone CH240-41L9, WORKING DRAFT SEQUEN...    36   3.2    4
(AL031592) Human DNA sequence from clone CTA-366B10 on chrom...    32   3.3    2
(CP001047) Mycoplasma arthritidis 158L3-1, complete genome.        38   3.3    11
(AC023770) Homo sapiens clone RP11-274P13, WORKING DRAFT SEQ...    34   3.3    8
(EJ647486) 1092351918706 Global-Ocean-Sampling_GS-30-02-01-1...    36   3.4    2
(BX601644) Zebrafish DNA sequence from clone DKEY-21O13 in l...    44   3.4    4
(CP000263) Buchnera aphidicola str. Cc (Cinara cedri), compl...    32   3.5    12
(AK137533) Mus musculus adult male bone cDNA, RIKEN full-len...    34   3.6    2
(CU468508) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    40   3.7    5
(DU667557) Bst000099 SAD small insert library Boechera stric...    38   4.0    2
(AZ661360) 1M0539I22R Mouse 10kb plasmid UUGC1M library Mus ...    34   4.0    2
(BZ279702) CH230-297B19.TJ CHORI-230 Segment 2 Rattus norveg...    34   4.0    2
(AC153433) Mus musculus 10 BAC RP23-69K22 (Roswell Park Canc...    38   4.0    6
(AZ960290) 2M0228I17F Mouse 10kb plasmid UUGC2M library Mus ...    34   4.0    2
(CP000123) Mycoplasma capricolum subsp. capricolum ATCC 2734...    34   4.1    13
(AM448092) Vitis vinifera contig VV78X084602.30, whole genom...    32   4.1    4
(CU570682) Zebrafish DNA sequence from clone CH211-87L8 in l...    44   4.9    4
(CR774199) Zebrafish DNA sequence from clone CH211-42H24 in ...    38   5.0    3
(AC189273) Brassica rapa subsp. pekinensis clone KBrB023N08,...    36   5.2    7
(CU467970) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    36   5.4    4
(AX346589) Sequence 1660 from Patent WO0200928.                    30   5.4    4

>(AU074685) Dictyostelium discoideum slug cDNA, clone SSL544.
          Length = 240

 Score =  335 bits (169), Expect = 1e-87
 Identities = 169/169 (100%)
 Strand = Plus / Plus


Query: 1   caaaagaaaagaaaccatattgaaattgtagatttaatagcaacttcaataaaagttaaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   caaaagaaaagaaaccatattgaaattgtagatttaatagcaacttcaataaaagttaaa 60


Query: 61  aatttattagcatttgatcttttctttaatcatttacaattaccaatttatacaagatta 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  aatttattagcatttgatcttttctttaatcatttacaattaccaatttatacaagatta 120


Query: 121 aaatgataaatctttaaaatatgcaacaaaaataataaaacataatcaa 169
           |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 aaatgataaatctttaaaatatgcaacaaaaataataaaacataatcaa 169

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 650,752,498
Number of extensions: 48124023
Number of successful extensions: 5634077
Number of sequences better than 10.0: 198
Length of query: 630
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 607
Effective length of database: 93,106,754,628
Effective search space: 56515800059196
Effective search space used: 56515800059196
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 6.20
Homology vs Protein 
Query= Contig-U05782-1 (Contig-U05782-1Q) /CSM_Contig/Contig-U05782-1Q.Seq.d
         (630 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: 438,055,633
Number of extensions: 5040314
Number of successful extensions: 6466
Number of sequences better than 10.0: 0
Number of HSP's gapped: 6466
Number of HSP's successfully gapped: 0
Length of query: 210
Length of database: 1,040,966,779
Length adjustment: 123
Effective length of query: 87
Effective length of database: 646,839,724
Effective search space: 56275055988
Effective search space used: 56275055988
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: 0.87  gvh: 0.40  alm: 0.50  top: 0.53  tms: 0.00  mit: 0.45  mip: 0.00
 nuc: 0.00  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 

	 48.0 %: mitochondrial
	 24.0 %: nuclear
	 20.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for Contig-U05782-1 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) 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