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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-U14709-1
Contig ID Contig-U14709-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14709-1 (Contig-U14709-1Q) /CSM_Contig/Contig-U14709-1Q.Seq.d
ATATATATATTTCAAGTATTCTTATTACCATCACAACAATGAATTTAAAA
TTAATTTTAATTGCTATTTTCTTAGCATTTTGCGTTTTTGCTAATGTTTC
AGCTGCAATTGATCCAAGCCACCCTGGTGCTGAAAGATTAAGAGAAATGA
GAGAAAGAATTAGATCAGAAAGACCAAACAAAAGAAATGGTGAACCATCA
AATAGACCAGAATCACCAGAAAAAATGATTAGAGATTTAAGAAATCGTAA
ACAAAATAGCAGAAATAGTCATGCCAATTAATTTCACTTTTTGGAAAATA
AAAAAAAAAAAAAGATATTGTAAAATACACTAAAAAAAAAAAAAAAAAAA
AA
Gap no gap
Contig length 352
Chromosome number (1..6, M) 3
Chromosome length 6358359
Start point 4842099
End point 4841747
Strand (PLUS/MINUS) MINUS
Number of clones 3
Number of EST 3
Link to clone list U14709
List of clone(s) 

est1=VHO638F,1,343
est2=SSE690E,16,333
est3=SSC159E,18,353
Translated Amino Acid sequence 
IYISSILITITTMNLKLILIAIFLAFCVFANVSAAIDPSHPGAERLREMRERIRSERPNK
RNGEPSNRPESPEKMIRDLRNRKQNSRNSHAN*fhflenkkkkkil*ntlkkkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
iyifqvfllpsqq*i*n*f*llfs*hfafllmfqlqliqatlvlkd*ek*ekeldqkdqt
kemvnhqidqnhqkk*lei*eivnkiaeivmpinftfwkikkkkryckih*kkkkkk


Frame B:
yiyfkysyyhhnnefkinfncyflsilrfc*cfscn*skppwc*kikrnerkn*irktkq
kkw*tik*tritrknd*rfkks*tk*qk*scqlislfgk*kkkkdivkytkkkkkkk


Frame C:
IYISSILITITTMNLKLILIAIFLAFCVFANVSAAIDPSHPGAERLREMRERIRSERPNK
RNGEPSNRPESPEKMIRDLRNRKQNSRNSHAN*fhflenkkkkkil*ntlkkkkkk
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14709-1 (Contig-U14709-1Q)
/CSM_Contig/Contig-U14709-1Q.Seq.d
         (352 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14709-1 (Contig-U14709-1Q) /CSM_Contig/Conti...   583  e-167
Contig-U12805-1 (Contig-U12805-1Q) /CSM_Contig/Conti...    38  0.006
Contig-U11186-1 (Contig-U11186-1Q) /CSM_Contig/Conti...    38  0.006
Contig-U12275-1 (Contig-U12275-1Q) /CSM_Contig/Conti...    36  0.024
Contig-U12044-1 (Contig-U12044-1Q) /CSM_Contig/Conti...    36  0.024
Contig-U14713-1 (Contig-U14713-1Q) /CSM_Contig/Conti...    34  0.095
Contig-U13885-1 (Contig-U13885-1Q) /CSM_Contig/Conti...    34  0.095
Contig-U11448-1 (Contig-U11448-1Q) /CSM_Contig/Conti...    34  0.095
Contig-U09085-1 (Contig-U09085-1Q) /CSM_Contig/Conti...    34  0.095
Contig-U08154-1 (Contig-U08154-1Q) /CSM_Contig/Conti...    34  0.095

>Contig-U14709-1 (Contig-U14709-1Q) /CSM_Contig/Contig-U14709-1Q.Seq.d
          Length = 352

 Score =  583 bits (294), Expect = e-167
 Identities = 294/294 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   atatatatatttcaagtattcttattaccatcacaacaatgaatttaaaattaattttaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   atatatatatttcaagtattcttattaccatcacaacaatgaatttaaaattaattttaa 60

                                                                       
Query: 61  ttgctattttcttagcattttgcgtttttgctaatgtttcagctgcaattgatccaagcc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  ttgctattttcttagcattttgcgtttttgctaatgtttcagctgcaattgatccaagcc 120

                                                                       
Query: 121 accctggtgctgaaagattaagagaaatgagagaaagaattagatcagaaagaccaaaca 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 accctggtgctgaaagattaagagaaatgagagaaagaattagatcagaaagaccaaaca 180

                                                                       
Query: 181 aaagaaatggtgaaccatcaaatagaccagaatcaccagaaaaaatgattagagatttaa 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 aaagaaatggtgaaccatcaaatagaccagaatcaccagaaaaaatgattagagatttaa 240

                                                                 
Query: 241 gaaatcgtaaacaaaatagcagaaatagtcatgccaattaatttcactttttgg 294
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 gaaatcgtaaacaaaatagcagaaatagtcatgccaattaatttcactttttgg 294


 Score = 32.2 bits (16), Expect = 0.38
 Identities = 16/16 (100%)
 Strand = Plus / Minus

                          
Query: 45 ttaaaattaattttaa 60
          ||||||||||||||||
Sbjct: 60 ttaaaattaattttaa 45


>Contig-U12805-1 (Contig-U12805-1Q) /CSM_Contig/Contig-U12805-1Q.Seq.d
          Length = 4737

 Score = 38.2 bits (19), Expect = 0.006
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                               
Query: 45   ttaaaattaattttaattg 63
            |||||||||||||||||||
Sbjct: 3831 ttaaaattaattttaattg 3813


 Score = 36.2 bits (18), Expect = 0.024
 Identities = 18/18 (100%)
 Strand = Plus / Plus

                              
Query: 45   ttaaaattaattttaatt 62
            ||||||||||||||||||
Sbjct: 3816 ttaaaattaattttaatt 3833


>Contig-U11186-1 (Contig-U11186-1Q) /CSM_Contig/Contig-U11186-1Q.Seq.d
          Length = 2199

 Score = 38.2 bits (19), Expect = 0.006
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                               
Query: 44   tttaaaattaattttaatt 62
            |||||||||||||||||||
Sbjct: 2191 tttaaaattaattttaatt 2173


 Score = 32.2 bits (16), Expect = 0.38
 Identities = 16/16 (100%)
 Strand = Plus / Plus

                            
Query: 45   ttaaaattaattttaa 60
            ||||||||||||||||
Sbjct: 2175 ttaaaattaattttaa 2190


  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: 5969
Number of Sequences: 6905
Number of extensions: 5969
Number of successful extensions: 731
Number of sequences better than 10.0: 220
length of query: 352
length of database: 5,674,871
effective HSP length: 16
effective length of query: 336
effective length of database: 5,564,391
effective search space: 1869635376
effective search space used: 1869635376
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 2008.12.29
Homology vs DNA 
Query= Contig-U14709-1 (Contig-U14709-1Q) /CSM_Contig/Contig-U14709-1Q.Seq.d
         (352 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

(BJ426830) Dictyostelium discoideum cDNA clone:ddv60k10, 5' ...   583   e-162  1
(C92563) Dictyostelium discoideum slug cDNA, clone SSE690.        553   e-153  1
(C84873) Dictyostelium discoideum slug cDNA, clone SSC159.        549   e-152  1
(FH681514) CHO_OF5058xp07f1.ab1 CHO_OF5 Nicotiana tabacum ge...    34   0.16   2
(AL034393) Caenorhabditis elegans YAC Y18D10A.                     48   0.21   1
(CU179699) Zebrafish DNA sequence from clone CH211-185A18 in...    34   0.46   2
(CT027728) Zebrafish DNA sequence from clone CH211-103D18 in...    34   0.49   2
(AY167989) Oreochromis mossambicus gonadotropin-releasing ho...    46   0.82   1
(AM438174) Vitis vinifera contig VV78X128750.23, whole genom...    46   0.82   1
(AC093736) Homo sapiens BAC clone RP11-18K13 from 4, complet...    46   0.82   1
(CT495548) A BAC library has been constructed from cultivar ...    46   0.82   1
(DY468210) et100B05 Normalized Eimeria tenella cDNA library ...    46   0.82   1
(AX695965) Sequence 1592 from Patent WO03008583.                   32   0.96   5
(CS789005) Sequence 261 from Patent WO2005031001.                  32   1.0    5
(CU928184) Brassica rapa subsp. pekinensis clone KBrH032O08,...    34   1.4    5
(AC123645) Mus musculus chromosome 15, clone RP23-99N19, com...    38   1.6    5
(FE170810) LV_LO_RA051B04r Litopenaeus vannamei lymphoid org...    32   2.2    2
(FH099219) CHO_OF3039xg19f1.ab1 CHO_OF3 Nicotiana tabacum ge...    34   2.2    2
(FE170811) LV_LO_RA051D04r Litopenaeus vannamei lymphoid org...    32   2.2    2
(AZ523190) 216PbE05 Pb MBN #21 Plasmodium berghei genomic 3'...    34   2.2    2
(AP001150) Homo sapiens genomic DNA, chromosome 11 clone:RP1...    42   2.2    2
(AC012889) Drosophila melanogaster, *** SEQUENCING IN PROGRE...    42   2.2    2
(AC021540) Homo sapiens chromosome 10 clone RP11-477E6 map 1...    38   3.0    4
(CP000745) Methanococcus maripaludis C7, complete genome.          34   3.1    10
(AC195118) Gasterosteus aculeatus clone VMRC26-21C14, comple...    44   3.2    1
(AF503580) Mungbean yellow mosaic India virus-[Cowpea] segme...    44   3.2    1
(BV338774) S230P6496RA5.T0 Rottweiler Canis familiaris STS g...    44   3.2    1
(AC159037) Pan troglodytes BAC clone CH251-277G20 from chrom...    44   3.2    1
(AC157498) Pan troglodytes BAC clone CH251-412M6 from chromo...    44   3.2    1
(AL136522) Human chromosome 14 DNA sequence BAC R-144C18 of ...    44   3.2    1
(AC072051) Homo sapiens chromosome , clone RP11-79D21, compl...    44   3.2    1
(EF206804) Glycine max clone GM_WBb0040F22, *** SEQUENCING I...    44   3.2    1
(AC027524) Homo sapiens chromosome 18 clone RP11-317G1 map 1...    44   3.2    1
(CR848807) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    44   3.2    1
(EK481258) 1095469517603 Global-Ocean-Sampling_GS-32-01-01-1...    44   3.2    1
(EK367088) 1095469402254 Global-Ocean-Sampling_GS-31-01-01-1...    44   3.2    1
(AQ002746) CIT-HSP-748F14-2.TV CIT-HSP Homo sapiens genomic ...    44   3.2    1
(CE521522) tigr-gss-dog-17000365648088 Dog Library Canis lup...    44   3.2    1
(CF150135) AGENCOURT_14922575 NICHD_XGC_Emb7 Xenopus (Silura...    44   3.2    1
(FE151068) LV_LO_RA008P10f Litopenaeus vannamei lymphoid org...    44   3.2    1
(CP000728) Clostridium botulinum F str. Langeland, complete ...    44   3.2    1
(AM427728) Vitis vinifera contig VV78X155051.3, whole genome...    42   3.4    2
(AM429446) Vitis vinifera contig VV78X228338.3, whole genome...    32   3.5    3
(DN492246) V058A08.3pR Populus male catkins cDNA library Pop...    34   3.5    2
(EJ649432) 1092953005720 Global-Ocean-Sampling_GS-30-02-01-1...    36   3.6    2
(EJ662583) 1092955029795 Global-Ocean-Sampling_GS-30-02-01-1...    36   4.0    2
(AC103187) Rattus norvegicus clone CH230-108E1, *** SEQUENCI...    40   5.9    3
(CU896625) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    30   5.9    2
(CU928225) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    40   6.0    3
(AC181317) Strongylocentrotus purpuratus clone R3-115E9, WOR...    40   6.2    4
(CU571074) Zebrafish DNA sequence from clone CH73-21K16 in l...    40   6.4    3
(AM471608) Vitis vinifera contig VV78X258796.7, whole genome...    36   6.5    3
(AL162253) Human DNA sequence from clone RP11-574F11 on chro...    32   6.5    5
(AC181529) Strongylocentrotus purpuratus clone R3-7A24, WORK...    40   6.6    4
(AC112996) Mus musculus chromosome 3, clone RP24-482I9, comp...    36   6.8    4
(AL139237) Human DNA sequence from clone RP11-168P8 on chrom...    38   6.9    3
(AC174114) Strongylocentrotus purpuratus clone R3-1004L5, WO...    40   7.4    4
(CD450198) USDA-FP_102159 Adult Alate Brown Citrus Aphid Tox...    30   7.6    3
(AC216684) Populus trichocarpa clone POP030-A02, complete se...    36   7.8    4
(AC127795) Rattus norvegicus clone CH230-101A9, *** SEQUENCI...    40   7.9    3
(AC110560) Mus musculus chromosome 3, clone RP23-254K1, comp...    40   8.0    2
(AC179459) Strongylocentrotus purpuratus clone R3-1037L01, W...    40   8.0    3
(AF315612) Alectryon forsythii chloroplast 30S ribosomal pro...    32   8.2    2
(AF315615) Alectryon reticulatus chloroplast 30S ribosomal p...    32   8.2    2
(AF315616) Alectryon oleifolius chloroplast 30S ribosomal pr...    32   8.2    2
(AF315610) Alectryon connatus chloroplast 30S ribosomal prot...    32   8.2    2
(AF315621) Dimocarpus australianus chloroplast 30S ribosomal...    32   8.2    2
(AF315622) Litchi chinensis chloroplast 30S ribosomal protei...    32   8.2    2
(AF315607) Alectryon tropicus chloroplast 30S ribosomal prot...    32   8.2    2
(AC154087) Alligator mississippiensis clone VMRC8-183J22, WO...    38   8.2    4
(DE311666) Bombyx mori genomic DNA, BAC clone:BES_090_I21.         32   8.2    2
(BI395993) UMN35H01 Canine Brain cDNA Library Canis lupus fa...    36   8.3    2
(DE311665) Bombyx mori genomic DNA, BAC clone:BES_090_I20.         32   8.3    2
(AC161115) Mus musculus chromosome 13 clone RP24-206H24, WOR...    38   8.3    2
(DE442903) Bombyx mori genomic DNA, Fosmid clone:GBMFno32_f0...    32   8.3    2
(CU457726) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    36   8.3    2
(CT033754) Mouse DNA sequence from clone RP23-174E11 on chro...    38   8.4    2
(EK197999) 1095460046291 Global-Ocean-Sampling_GS-31-01-01-1...    30   8.4    3
(AM472557) Vitis vinifera contig VV78X058285.20, whole genom...    42   8.5    2
(AC131381) Strongylocentrotus purpuratus clone Sp31J8, *** S...    36   8.6    3
(CU550687) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    36   8.7    5
(CB936263) USDA-FP_101769 Adult Alate Brown Citrus Aphid Tox...    30   8.8    3
(AC196751) Citrus sinensis clone CSRBBa-018K20, WORKING DRAF...    40   9.1    2
(AC079373) Mus musculus strain C57BL6/J chromosome 12 clone ...    40   9.3    4
(AC093767) Homo sapiens BAC clone RP11-107E21 from 4, comple...    38   9.8    3
(AC161015) Pan troglodytes BAC clone CH251-489I22 from chrom...    38   9.8    4
(AC127399) Rattus norvegicus clone CH230-114C9, WORKING DRAF...    36   10.0   5

>(BJ426830) Dictyostelium discoideum cDNA clone:ddv60k10, 5' end,
           single read.
          Length = 343

 Score =  583 bits (294), Expect = e-162
 Identities = 294/294 (100%)
 Strand = Plus / Plus


Query: 1   atatatatatttcaagtattcttattaccatcacaacaatgaatttaaaattaattttaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   atatatatatttcaagtattcttattaccatcacaacaatgaatttaaaattaattttaa 60


Query: 61  ttgctattttcttagcattttgcgtttttgctaatgtttcagctgcaattgatccaagcc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  ttgctattttcttagcattttgcgtttttgctaatgtttcagctgcaattgatccaagcc 120


Query: 121 accctggtgctgaaagattaagagaaatgagagaaagaattagatcagaaagaccaaaca 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 accctggtgctgaaagattaagagaaatgagagaaagaattagatcagaaagaccaaaca 180


Query: 181 aaagaaatggtgaaccatcaaatagaccagaatcaccagaaaaaatgattagagatttaa 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 aaagaaatggtgaaccatcaaatagaccagaatcaccagaaaaaatgattagagatttaa 240


Query: 241 gaaatcgtaaacaaaatagcagaaatagtcatgccaattaatttcactttttgg 294
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 gaaatcgtaaacaaaatagcagaaatagtcatgccaattaatttcactttttgg 294

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 481,571,655
Number of extensions: 29987724
Number of successful extensions: 2636227
Number of sequences better than 10.0: 90
Length of query: 352
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 329
Effective length of database: 93,106,754,628
Effective search space: 30632122272612
Effective search space used: 30632122272612
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.12
Homology vs Protein 
Query= Contig-U14709-1 (Contig-U14709-1Q) /CSM_Contig/Contig-U14709-1Q.Seq.d
         (352 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AL356815_15(AL356815|pid:none) Neurospora crassa DNA linkage gro...    36   0.36
AY909793_1(AY909793|pid:none) Panthera leo persica clone M108 MH...    34   1.4
BX294147_158(BX294147|pid:none) Rhodopirellula baltica SH 1 comp...    33   3.1
BX548175_2786(BX548175|pid:none) Prochlorococcus marinus MIT9313...    32   5.3
CP001322_3863(CP001322|pid:none) Desulfatibacillum alkenivorans ...    32   5.3
CU640366_328(CU640366|pid:none) Podospora anserina genomic DNA c...    32   5.3
CP000133_609(CP000133|pid:none) Rhizobium etli CFN 42, complete ...    32   6.9
BX842597_14(BX842597|pid:none) Neurospora crassa DNA linkage gro...    32   9.0

>AL356815_15(AL356815|pid:none) Neurospora crassa DNA linkage group
           II BAC clone B24H17.  &T49835(T49835)
          Length = 795

 Score = 36.2 bits (82), Expect = 0.36
 Identities = 23/59 (38%), Positives = 31/59 (52%), Gaps = 5/59 (8%)
 Frame = +3

Query: 102 AAIDPSHPGAER----LREMRERIRSE-RPNKRNGEPSNRPESPEKMIRDLRNRKQNSR 263
           A++DPS P A+R    LR  + R RS  RPNK+N E    P+  E +     N   +SR
Sbjct: 29  ASLDPSKPSADRFGRLLRSAKARFRSHLRPNKKNDETKAAPQKKEFVNFSRPNAMASSR 87

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: 322,590,226
Number of extensions: 4612152
Number of successful extensions: 16234
Number of sequences better than 10.0: 8
Number of HSP's gapped: 16178
Number of HSP's successfully gapped: 8
Length of query: 117
Length of database: 1,051,180,864
Length adjustment: 84
Effective length of query: 33
Effective length of database: 779,309,908
Effective search space: 25717226964
Effective search space used: 25717226964
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: 0.95  gvh: 0.75  alm: 0.69  top: 0.53  tms: 0.00  mit: 0.31  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 

	 36.0 %: extracellular, including cell wall
	 16.0 %: cytoplasmic
	 12.0 %: nuclear
	  8.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  8.0 %: vacuolar
	  8.0 %: plasma membrane
	  4.0 %: Golgi

>> prediction for Contig-U14709-1 is exc
VS (DIR, S) 0
VH (FL, L) 1
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 2
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