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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-U14490-1
Contig ID Contig-U14490-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14490-1 (Contig-U14490-1Q) /CSM_Contig/Contig-U14490-1Q.Seq.d
NNNNNNNNNNAAAATAATATTTTAAAAAAAAAATAAATAAAAACTAATAC
TATAAAAAGAAAAATGTCAATTTTTAAATCAATTACTTCCTTATCAGTNT
CAAAATCTGTTTCAAAATCATCAATTGGCCAAAGTGGAAATTTTGGAGGT
GCACAAACCTCAAACCAAATAACTGGAAATGGTGTTGTTGCAGGTTCAAA
AAAAAGTGCTAGTGGTGTTTATTATCATCATGAAGAATCAAAATCATCTA
CCACATTTGTTAGTGGAAGTTCTTCTGAAAATGAATTTGTTGGTGCATGG
GGACATTAGAATATTTAATTTTTATAAACTCTTACTTTTATGTGAAAGTT
TTTTAAAATGTAAAGTTACCTAAAGCTAATATTACCATATATAAATAAAT
AAGTAAAATTTTTTTTTTCA
Gap no gap
Contig length 420
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 4476883
End point 4477293
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U14490
List of clone(s) 

est1=CHS259Z,1,411
Translated Amino Acid sequence 
xxxxnnilkkk*IKTNTIKRKMSIFKSITSLSVSKSVSKSSIGQSGNFGGAQTSNQITGN
GVVAGSKKSASGVYYHHEESKSSTTFVSGSSSENEFVGAWGH*ni*fl*tltfm*kffkm
*sylklilpyink*vkfffs
Translated Amino Acid sequence (All Frames) 
Frame A:
xxxxnnilkkk*IKTNTIKRKMSIFKSITSLSVSKSVSKSSIGQSGNFGGAQTSNQITGN
GVVAGSKKSASGVYYHHEESKSSTTFVSGSSSENEFVGAWGH*ni*fl*tltfm*kffkm
*sylklilpyink*vkfffs


Frame B:
xxxkiif*kknk*klil*kekcqflnqllpyqxqnlfqnhqlakveilevhkpqtk*lem
vllqvqkkvlvvfiiimknqnhlphllvevllkmnllvhgdirifnfykllllcesflkc
kvt*s*yyhi*ink*nfff


Frame C:
xxxk*yfkkkinkn*yykkknvnf*inyflisxkicfkiinwpkwkfwrctnlkpnnwkw
cccrfkkkc*wcllss*rikiiyhic*wkff*k*icwcmgtleylifinsyfyvkvf*nv
klpkanitiyk*iskifff
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14490-1 (Contig-U14490-1Q)
/CSM_Contig/Contig-U14490-1Q.Seq.d
         (420 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14490-1 (Contig-U14490-1Q) /CSM_Contig/Conti...   628  e-180
Contig-U05020-1 (Contig-U05020-1Q) /CSM_Contig/Conti...    38  0.007
Contig-U14002-1 (Contig-U14002-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U11608-1 (Contig-U11608-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U10742-1 (Contig-U10742-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U10626-1 (Contig-U10626-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U06680-1 (Contig-U06680-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U04513-1 (Contig-U04513-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U03520-1 (Contig-U03520-1Q) /CSM_Contig/Conti...    36  0.029
Contig-U11859-1 (Contig-U11859-1Q) /CSM_Contig/Conti...    32  0.45

>Contig-U14490-1 (Contig-U14490-1Q) /CSM_Contig/Contig-U14490-1Q.Seq.d
          Length = 420

 Score =  628 bits (317), Expect = e-180
 Identities = 336/344 (97%)
 Strand = Plus / Plus

                                                                       
Query: 65  tgtcaatttttaaatcaattacttccttatcagtntcaaaatctgtttcaaaatcatcaa 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65  tgtcaatttttaaatcaattacttccttatcagtntcaaaatctgtttcaaaatcatcaa 124

                                                                       
Query: 125 ttggccaaagtggaaattttggaggtgcacaaacctcaaaccaaataactggaaatggtg 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 125 ttggccaaagtggaaattttggaggtgcacaaacctcaaaccaaataactggaaatggtg 184

                                                                       
Query: 185 ttgttgcaggttcnnnnnnnngtgctagtggtgtttattatcatcatgaagaatcaaaat 244
           |||||||||||||        |||||||||||||||||||||||||||||||||||||||
Sbjct: 185 ttgttgcaggttcaaaaaaaagtgctagtggtgtttattatcatcatgaagaatcaaaat 244

                                                                       
Query: 245 catctaccacatttgttagtggaagttcttctgaaaatgaatttgttggtgcatggggac 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 245 catctaccacatttgttagtggaagttcttctgaaaatgaatttgttggtgcatggggac 304

                                                                       
Query: 305 attagaatatttaatttttataaactcttacttttatgtgaaagttttttaaaatgtaaa 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 305 attagaatatttaatttttataaactcttacttttatgtgaaagttttttaaaatgtaaa 364

                                                       
Query: 365 gttacctaaagctaatattaccatatataaataaataagtaaaa 408
           ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 365 gttacctaaagctaatattaccatatataaataaataagtaaaa 408


>Contig-U05020-1 (Contig-U05020-1Q) /CSM_Contig/Contig-U05020-1Q.Seq.d
          Length = 523

 Score = 38.2 bits (19), Expect = 0.007
 Identities = 19/19 (100%)
 Strand = Plus / Minus

                              
Query: 336 ttttatgtgaaagtttttt 354
           |||||||||||||||||||
Sbjct: 34  ttttatgtgaaagtttttt 16


>Contig-U14002-1 (Contig-U14002-1Q) /CSM_Contig/Contig-U14002-1Q.Seq.d
          Length = 751

 Score = 36.2 bits (18), Expect = 0.029
 Identities = 18/18 (100%)
 Strand = Plus / Plus

                            
Query: 68 caatttttaaatcaatta 85
          ||||||||||||||||||
Sbjct: 80 caatttttaaatcaatta 97


  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: 10,596
Number of Sequences: 6905
Number of extensions: 10596
Number of successful extensions: 2019
Number of sequences better than 10.0: 473
length of query: 420
length of database: 5,674,871
effective HSP length: 16
effective length of query: 404
effective length of database: 5,564,391
effective search space: 2248013964
effective search space used: 2248013964
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 2008.12.23
Homology vs DNA 
Query= Contig-U14490-1 (Contig-U14490-1Q) /CSM_Contig/Contig-U14490-1Q.Seq.d
         (420 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

(BJ386528) Dictyostelium discoideum cDNA clone:ddc58e16, 3' ...   402   e-178  2
(BZ547244) OGAJY02TM ZM2_0.7_1.5_KB Zea mays genomic clone Z...    40   0.018  2
(BZ547234) OGAJY02TC ZM2_0.7_1.5_KB Zea mays genomic clone Z...    40   0.019  2
(CC365325) PUHFY57TD ZM_0.6_1.0_KB Zea mays genomic clone ZM...    40   0.029  2
(CP000867) Methanococcus maripaludis C6, complete genome.          36   0.20   10
(BX005106) Zebrafish DNA sequence from clone DKEY-188I13.          36   0.25   4
(AC200399) Spermophilus tridecemlineatus clone VMRC20-537D6,...    48   0.25   1
(AC171478) Bos taurus clone CH240-271M9, WORKING DRAFT SEQUE...    48   0.25   1
(AC024053) Homo sapiens chromosome X clone RP11-681F16, WORK...    36   0.36   4
(CR318594) Zebrafish DNA sequence *** SEQUENCING CANCELLED *...    40   0.38   4
(CP000962) Clostridium botulinum A3 str. Loch Maree, complet...    42   0.38   12
(BX296522) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   0.43   3
(AL359921) Human DNA sequence from clone RP11-385F5 on chrom...    34   0.54   2
(AC026614) Homo sapiens chromosome 5 clone RP11-755L11 map 5...    34   0.54   2
(AL357554) Human DNA sequence *** SEQUENCING CANCELLED *** f...    34   0.54   2
(AC010807) Homo sapiens clone RP11-3C10, WORKING DRAFT SEQUE...    34   0.54   2
(AC091953) Homo sapiens chromosome 5 clone RP11-417J1, compl...    34   0.54   2
(AC002087) Human BAC clone GS1-113D4 from 5p15.2, complete s...    34   0.54   2
(AC223429) Homo sapiens FOSMID clone ABC9-43986000A14 from c...    34   0.58   2
(CR356244) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    42   0.62   3
(BX470243) Zebrafish DNA sequence from clone CH211-79J19 in ...    36   0.62   3
(AC160001) Bos taurus clone CH240-88N4, WORKING DRAFT SEQUEN...    38   0.64   3
(DX538145) GH_MBb0032F16r GH_MBb Gossypium hirsutum genomic ...    32   0.65   3
(AC213148) Oryza officinalis clone OO__Ba0113F22, *** SEQUEN...    40   0.66   3
(AC212874) Pongo abelii chromosome UNKNOWN clone CH276-479F1...    36   0.69   4
(EY368136) CAXA11639.rev CAXA Helobdella robusta Subtracted ...    34   0.71   2
(AL034556) Plasmodium falciparum MAL3P5.                           36   0.93   4
(AL845291) Mouse DNA sequence from clone RP23-1O11 on chromo...    46   0.99   1
(AC138367) Mus musculus chromosome 8, clone RP23-296G24, com...    46   0.99   1
(AC121555) Mus musculus clone RP24-189I10, LOW-PASS SEQUENCE...    46   0.99   1
(AC112091) Rattus norvegicus clone CH230-50E6, WORKING DRAFT...    46   0.99   1
(CU914248) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   0.99   1
(CU571002) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   0.99   1
(FH666063) CHO_OF5015xn11f1.ab1 CHO_OF5 Nicotiana tabacum ge...    46   0.99   1
(EK188233) 1095460009281 Global-Ocean-Sampling_GS-31-01-01-1...    46   0.99   1
(EI005253) MUGQ_CH252P176H09Sp6_CN243_041 CHORI-252 Vervet M...    46   0.99   1
(DH735215) Rattus norvegicus DNA, BAC clone: RNB1-307H15, 3'...    46   0.99   1
(DY909118) CHAX4046.b1_K04.ab1 CHA(XYZ) common wild sunflowe...    46   0.99   1
(DV749875) ID0AAH2DD02ZM1 ID0AAH Acyrthosiphon pisum cDNA cl...    46   0.99   1
(DV749800) ID0AAH2CD02ZM1 ID0AAH Acyrthosiphon pisum cDNA cl...    46   0.99   1
(ES550413) TH1021A03T7 TH1 Tribolium castaneum cDNA, mRNA se...    38   1.1    2
(DE143071) Oryzias latipes DNA, reverse end of BAC clone: Mn...    42   1.2    2
(AL449934) Streptococcus pneumoniae serotype 19F  *** SEQUEN...    42   1.2    3
(BJ391312) Dictyostelium discoideum cDNA clone:dds13l06, 5' ...    32   1.4    3
(AC205144) Zea mays chromosome 4 clone CH201-198B8; ZMMBBc01...    40   1.4    4
(BJ413192) Dictyostelium discoideum cDNA clone:ddv14e15, 5' ...    32   1.5    3
(AL953911) Human DNA sequence from clone RP11-242D12 on chro...    40   1.6    6
(AC114263) Dictyostelium discoideum chromosome 2 map 215673-...    34   1.6    5
(AF437291) Saccharomyces castellii strain NRRL Y-12630 mitoc...    34   1.6    4
(AC105452) Homo sapiens BAC clone RP11-122J10 from 4, comple...    36   1.7    5
(CU459171) Zebrafish DNA sequence from clone CH73-6I22 in li...    42   1.8    2
(AC171419) Bos taurus clone CH240-300K10, WORKING DRAFT SEQU...    34   1.8    4
(AC107269) Rattus norvegicus clone CH230-165D14, *** SEQUENC...    34   1.9    2
(AC137842) Mus musculus chromosome 15, clone RP23-91M6, comp...    34   1.9    2
(AC106701) Rattus norvegicus clone CH230-231N15, *** SEQUENC...    34   1.9    2
(AC115735) Mus musculus chromosome 15, clone RP23-470I4, com...    34   2.0    2
(AC226486) Monodelphis domestica clone VMRC18-843N17, WORKIN...    34   2.0    2
(BJ387123) Dictyostelium discoideum cDNA clone:dds12o09, 5' ...    32   2.0    3
(BJ414178) Dictyostelium discoideum cDNA clone:ddv18f12, 5' ...    32   2.2    3
(AC097483) Homo sapiens BAC clone RP11-146N10 from 2, comple...    36   2.4    3
(AC116984) Dictyostelium discoideum chromosome 2 map 2567470...    34   2.4    8
(AM424947) Vitis vinifera contig VV78X167145.12, whole genom...    36   2.7    5
(AM285305) Spiroplasma citri GII3-3X chromosome, contig Cont...    34   2.7    6
(AX345101) Sequence 172 from Patent WO0200928.                     34   2.9    3
(AX281143) Sequence 8 from Patent WO0177377.                       34   2.9    3
(AR453031) Sequence 8 from patent US 6677731.                      34   2.9    3
(AC102197) Mus musculus chromosome 1, clone RP24-466J11, com...    40   3.0    2
(CU041412) Mouse DNA sequence *** SEQUENCING IN PROGRESS ***...    40   3.1    2
(AC120634) Rattus norvegicus clone CH230-121E22, *** SEQUENC...    42   3.1    3
(AC177638) Strongylocentrotus purpuratus clone R3-1004C20, W...    38   3.1    5
(AC188295) Aotus nancymaae clone CH258-260P20, WORKING DRAFT...    38   3.2    2
(AC095930) Rattus norvegicus clone CH230-10K15, WORKING DRAF...    40   3.3    4
(AP001154) Homo sapiens genomic DNA, chromosome 11q14 clone:...    34   3.4    6
(AC188991) Medicago truncatula chromosome 2 BAC clone mth2-2...    36   3.5    6
(AL844507) Plasmodium falciparum chromosome 8.                     34   3.5    7
(AB178773) Lingula anatina mitochondrial cox1, cox2, nad2, n...    36   3.5    3
(AL935187) Zebrafish DNA sequence from clone DKEY-97C7 in li...    42   3.6    3
(AE014838) Plasmodium falciparum 3D7 chromosome 11 section 3...    34   3.6    6
(AC169009) Sorex araneus clone SA_Ba-34A18, WORKING DRAFT SE...    36   3.7    4
(CE191858) tigr-gss-dog-17000371465041 Dog Library Canis lup...    36   3.7    2
(AC191903) Sorex araneus clone SA_Ba-268O21, WORKING DRAFT S...    36   3.7    4
(CU914164) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    38   3.7    5
(AE014834) Plasmodium falciparum 3D7 chromosome 10 section 6...    34   3.8    6
(AC005507) Plasmodium falciparum chromosome 12 clone 3D7, **...    34   3.8    7
(BX571790) Zebrafish DNA sequence from clone CH211-199M3 in ...    44   3.9    1
(BX465867) Zebrafish DNA sequence from clone DKEYP-24D6 in l...    44   3.9    1
(AL929220) Zebrafish DNA sequence from clone DKEY-65B13 in l...    44   3.9    1
(AF349465) Mus musculus LIX protein, platelet basic protein,...    44   3.9    1
(AC147096) Mus musculus BAC clone RP23-448H3 from 14, comple...    44   3.9    1
(AC140412) Mus musculus BAC clone RP24-173O20 from chromosom...    44   3.9    1
(AC114537) Mus musculus chromosome 15, clone RP23-51A16, com...    44   3.9    1
(AC113262) Mus musculus strain 129/Sv clone ct7-518k21 map 5...    44   3.9    1
(AC105995) Mus musculus chromosome 5, clone RP24-168A7, comp...    44   3.9    1
(AC191850) Rhesus Macaque  BAC CH250-135L17 () complete sequ...    44   3.9    1
(AC187495) MACACA MULATTA BAC clone CH250-70H12 from chromos...    44   3.9    1
(AL161561) Arabidopsis thaliana DNA chromosome 4, contig fra...    44   3.9    1
(AL078637) Arabidopsis thaliana DNA chromosome 4, BAC clone ...    44   3.9    1
(AC139601) Medicago truncatula clone mth2-8h11, complete seq...    44   3.9    1
(AC090515) Homo sapiens chromosome 15 clone RP11-30K9 map 15...    44   3.9    1
(AC074101) Homo sapiens BAC clone RP11-646I19 from 2, comple...    44   3.9    1

>(BJ386528) Dictyostelium discoideum cDNA clone:ddc58e16, 3' end,
           single read.
          Length = 411

 Score =  402 bits (203), Expect(2) = e-178
 Identities = 203/203 (100%)
 Strand = Plus / Minus


Query: 206 gtgctagtggtgtttattatcatcatgaagaatcaaaatcatctaccacatttgttagtg 265
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 216 gtgctagtggtgtttattatcatcatgaagaatcaaaatcatctaccacatttgttagtg 157


Query: 266 gaagttcttctgaaaatgaatttgttggtgcatggggacattagaatatttaatttttat 325
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 156 gaagttcttctgaaaatgaatttgttggtgcatggggacattagaatatttaatttttat 97


Query: 326 aaactcttacttttatgtgaaagttttttaaaatgtaaagttacctaaagctaatattac 385
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96  aaactcttacttttatgtgaaagttttttaaaatgtaaagttacctaaagctaatattac 37


Query: 386 catatataaataaataagtaaaa 408
           |||||||||||||||||||||||
Sbjct: 36  catatataaataaataagtaaaa 14

 Score =  256 bits (129), Expect(2) = e-178
 Identities = 132/132 (100%)
 Strand = Plus / Minus


Query: 66  gtcaatttttaaatcaattacttccttatcagtntcaaaatctgtttcaaaatcatcaat 125
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 356 gtcaatttttaaatcaattacttccttatcagtntcaaaatctgtttcaaaatcatcaat 297


Query: 126 tggccaaagtggaaattttggaggtgcacaaacctcaaaccaaataactggaaatggtgt 185
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 296 tggccaaagtggaaattttggaggtgcacaaacctcaaaccaaataactggaaatggtgt 237


Query: 186 tgttgcaggttc 197
           ||||||||||||
Sbjct: 236 tgttgcaggttc 225

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 512,554,078
Number of extensions: 39091585
Number of successful extensions: 4895067
Number of sequences better than 10.0: 278
Length of query: 420
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 397
Effective length of database: 93,106,754,628
Effective search space: 36963381587316
Effective search space used: 36963381587316
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.11
Homology vs Protein 
Query= Contig-U14490-1 (Contig-U14490-1Q) /CSM_Contig/Contig-U14490-1Q.Seq.d
         (420 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: 444,642,450
Number of extensions: 6689065
Number of successful extensions: 10394
Number of sequences better than 10.0: 0
Number of HSP's gapped: 10394
Number of HSP's successfully gapped: 0
Length of query: 140
Length of database: 1,051,180,864
Length adjustment: 104
Effective length of query: 36
Effective length of database: 714,578,728
Effective search space: 25724834208
Effective search space used: 25724834208
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: 29 (15.8 bits)
PSORT 

 psg: 0.83  gvh: 0.49  alm: 0.49  top: 0.53  tms: 0.00  mit: 0.45  mip: 0.03
 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 

	 48.0 %: mitochondrial
	 32.0 %: nuclear
	 16.0 %: cytoplasmic
	  4.0 %: cytoskeletal

>> prediction for Contig-U14490-1 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) 0
CH (FL, L) 1
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0