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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-U15153-1
Contig ID Contig-U15153-1
Contig update 2004. 6.11
Contig sequence 
>Contig-U15153-1 (Contig-U15153-1Q) /CSM_Contig/Contig-U15153-1Q.Seq.d
CTCTTCACCTGTAAATGAAACCACCACCACCACCACCACCACAACAACAA
CAACGTCCTCTTCTTTATCAACTCCTGTATCATCTGATTCAGAAACAAGT
AGTAATAGTAGTGGAGAATCAAAACACTCCAAACAAATATTAATCAAAGA
AGTTTCAAATCTTGAAGAAAAATTAAAAGTAACAAATTTAAAACCTCACT
CCACCGCTTTATTACTACAAAATCAAGAAACTACCACTACTGGTAAAAAA
ATAAATTCAATCTTAAAAAAAAGATGTATTTCTATCAGTAAAGAAAATGA
AGATACTAAAACCAAAAAAGTTAGATTCCTCAATTTTGGTTCTATCGATA
AAAACCAAGTTTAGAATAAAATTTTTTTTTCTTAATAAAACAATAAGGTT
TTTTTTTTTTTTTTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAA
Gap no gap
Contig length 523
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 4988318
End point 4988760
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U15153
List of clone(s) 

est1=FC-AU21E,1,523
Translated Amino Acid sequence 
SSPVNETTTTTTTTTTTTSSSLSTPVSSDSETSSNSSGESKHSKQILIKEVSNLEEKLKV
TNLKPHSTALLLQNQETTTTGKKINSILKKRCISISKENEDTKTKKVRFLNFGSIDKNQV
*nkiffs**nnkvfffffkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
lftck*nhhhhhhhnnnnvlffinscii*frnk****wriktlqtninqrsfks*rkiks
nkfktslhrfittksrnyhyw*knkfnlkkkmyfyq*rk*ry*nqks*ipqfwfyr*kps
le*nffflikq*gfffff*kkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkk


Frame B:
SSPVNETTTTTTTTTTTTSSSLSTPVSSDSETSSNSSGESKHSKQILIKEVSNLEEKLKV
TNLKPHSTALLLQNQETTTTGKKINSILKKRCISISKENEDTKTKKVRFLNFGSIDKNQV
*nkiffs**nnkvfffffkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkk


Frame C:
lhl*mkpppppppqqqqrpllyqllyhliqkqvvivvenqntpnky*skkfqilkkn*k*
qi*nltpplyyykikklpllvkk*iqs*kkdvflsvkkmkilkpkkldssilvlsiktkf
rikffflnktirffffflkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkkk
own update 2004. 6.23
Homology vs CSM-cDNA 
Query= Contig-U15153-1 (Contig-U15153-1Q)
/CSM_Contig/Contig-U15153-1Q.Seq.d
         (523 letters)

Database: CSM
           8402 sequences; 8,075,542 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U15153-1 (Contig-U15153-1Q) /CSM_Contig/Conti...   563  e-160
Contig-U13880-1 (Contig-U13880-1Q) /CSM_Contig/Conti...    44  2e-04
Contig-U14532-1 (Contig-U14532-1Q) /CSM_Contig/Conti...    36  0.052
Contig-U02855-1 (Contig-U02855-1Q) /CSM_Contig/Conti...    36  0.052
Contig-U15205-1 (Contig-U15205-1Q) /CSM_Contig/Conti...    34  0.21
Contig-U14792-1 (Contig-U14792-1Q) /CSM_Contig/Conti...    34  0.21
Contig-U14269-1 (Contig-U14269-1Q) /CSM_Contig/Conti...    34  0.21
Contig-U12140-1 (Contig-U12140-1Q) /CSM_Contig/Conti...    34  0.21
Contig-U11886-1 (Contig-U11886-1Q) /CSM_Contig/Conti...    34  0.21
Contig-U11537-1 (Contig-U11537-1Q) /CSM_Contig/Conti...    34  0.21

>Contig-U15153-1 (Contig-U15153-1Q) /CSM_Contig/Contig-U15153-1Q.Seq.d
          Length = 523

 Score =  563 bits (284), Expect = e-160
 Identities = 332/356 (93%)
 Strand = Plus / Plus

                                                                       
Query: 43  aacaacaacaacgtcctcttctttatcaactcctgtatcatctgattcagaaacaagtag 102
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43  aacaacaacaacgtcctcttctttatcaactcctgtatcatctgattcagaaacaagtag 102

                                                                       
Query: 103 taatagtagtggagaatcaaaacactccaaacaaatattaatcaaagaagtttcaaatct 162
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 103 taatagtagtggagaatcaaaacactccaaacaaatattaatcaaagaagtttcaaatct 162

                                                                       
Query: 163 tgaagaaaaattaaaagtaacaaatttaaaacctcactccaccgctttattactacaaaa 222
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 163 tgaagaaaaattaaaagtaacaaatttaaaacctcactccaccgctttattactacaaaa 222

                                                                       
Query: 223 tcaagaaactaccactactggtnnnnnnntaaattcaatcttnnnnnnnngatgtatttc 282
           ||||||||||||||||||||||       |||||||||||||        ||||||||||
Sbjct: 223 tcaagaaactaccactactggtaaaaaaataaattcaatcttaaaaaaaagatgtatttc 282

                                                                       
Query: 283 tatcagtaaagaaaatgaagatactaaaaccaaaaaagttagattcctcaattttggttc 342
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 283 tatcagtaaagaaaatgaagatactaaaaccaaaaaagttagattcctcaattttggttc 342

                                                                   
Query: 343 tatcgataaaaaccaagtttagaataaaannnnnnnnncttaataaaacaataagg 398
           |||||||||||||||||||||||||||||         ||||||||||||||||||
Sbjct: 343 tatcgataaaaaccaagtttagaataaaatttttttttcttaataaaacaataagg 398


 Score = 38.2 bits (19), Expect = 0.013
 Identities = 19/19 (100%)
 Strand = Plus / Plus

                             
Query: 1  ctcttcacctgtaaatgaa 19
          |||||||||||||||||||
Sbjct: 1  ctcttcacctgtaaatgaa 19


>Contig-U13880-1 (Contig-U13880-1Q) /CSM_Contig/Contig-U13880-1Q.Seq.d
          Length = 1592

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

                                 
Query: 289 taaagaaaatgaagatactaaa 310
           ||||||||||||||||||||||
Sbjct: 266 taaagaaaatgaagatactaaa 287


>Contig-U14532-1 (Contig-U14532-1Q) /CSM_Contig/Contig-U14532-1Q.Seq.d
          Length = 587

 Score = 36.2 bits (18), Expect = 0.052
 Identities = 21/22 (95%)
 Strand = Plus / Plus

                                 
Query: 94  aacaagtagtaatagtagtgga 115
           ||||||||||||||||| ||||
Sbjct: 86  aacaagtagtaatagtaatgga 107


  Database: CSM
    Posted date:  Jun 21, 2004  1:35 PM
  Number of letters in database: 8,075,542
  Number of sequences in database:  8402
  
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: 17,667
Number of Sequences: 8402
Number of extensions: 17667
Number of successful extensions: 939
Number of sequences better than 10.0: 101
length of query: 523
length of database: 8,075,542
effective HSP length: 16
effective length of query: 507
effective length of database: 7,941,110
effective search space: 4026142770
effective search space used: 4026142770
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 2009. 1.13
Homology vs DNA 
Query= Contig-U15153-1 (Contig-U15153-1Q) /CSM_Contig/Contig-U15153-1Q.Seq.d
         (523 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

(AC116305) Dictyostelium discoideum chromosome 2 map 1005175...   400   e-170  4
(C24342) Dictyostelium discoideum gamete cDNA, clone FC-AU21.     400   e-170  4
(BV426376) S237P6125FG3.T0 PortugueseWaterDog Canis familiar...    52   0.020  1
(AC068970) Homo sapiens BAC clone RP11-84F8 from 2, complete...    48   0.32   1
(AC193779) Solanum lycopersicum chromosome 1 clone C01HBa032...    46   1.2    1
(AL611966) Human DNA sequence from clone RP11-89K2 on chromo...    46   1.2    1
(CU695187) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   1.2    1
(CU468550) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   1.2    1
(AC217728) Solanum tuberosum chromosome 1 clone RH158N18, **...    46   1.2    1
(EK124073) 1092968600689 Global-Ocean-Sampling_GS-31-01-01-1...    46   1.2    1
(EJ231585) 1092402624560 Global-Ocean-Sampling_GS-27-01-01-1...    46   1.2    1
(CZ932770) 252735 Tomato EcoRI BAC Library Solanum lycopersi...    46   1.2    1
(CU742824) A BAC library has been constructed from PN40024 g...    46   1.2    1
(EE136813) SiJWA06ABB Lausanne fire ant library Solenopsis i...    46   1.2    1
(EE131041) SiJWG10AAZ Lausanne fire ant library Solenopsis i...    46   1.2    1
(EY204192) PRAG-aaa43b08.g1 Sand_fly_EST_Normalized Phleboto...    46   1.2    1
(AP006278) Homo sapiens genomic DNA, chromosome 8q22.1, clon...    44   1.3    2
(AC232197) Ornithorhynchus anatinus clone OA_Bb-165D8, WORKI...    34   2.6    2
(AB017063) Arabidopsis thaliana genomic DNA, chromosome 5, T...    32   2.6    2
(DX551479) GH_MBb0053G06r GH_MBb Gossypium hirsutum genomic ...    36   3.4    2
(CU914726) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    38   3.6    4
(AM449570) Vitis vinifera contig VV78X220706.4, whole genome...    42   4.1    2
(AC159377) Mus musculus 10 BAC RP23-335D19 (Roswell Park Can...    40   4.4    3
(AP006628) Onion yellows phytoplasma OY-M DNA, complete genome.    38   4.9    10
(CR392341) Zebrafish DNA sequence from clone CH211-222E20 in...    44   4.9    1
(CR352231) Zebrafish DNA sequence from clone CH211-216G8 in ...    44   4.9    1
(BX537338) Zebrafish DNA sequence from clone DKEY-258E8 in l...    44   4.9    1
(BX296525) Zebrafish DNA sequence from clone CH211-252F24 in...    44   4.9    1
(AL954832) Zebrafish DNA sequence from clone DKEY-15O4.            44   4.9    1
(EU532369) Gossypium barbadense clone I17-7 ISSR marker geno...    44   4.9    1
(AM433352) Vitis vinifera, whole genome shotgun sequence, co...    44   4.9    1
(AC136504) Medicago truncatula chromosome 8 clone mth2-13m6,...    44   4.9    1
(DQ989622) Miniopterus fuliginosus voucher GZNU200319 16S ri...    44   4.9    1
(AE014840) Plasmodium falciparum 3D7 chromosome 11 section 5...    44   4.9    1
(AC117076) Dictyostelium discoideum chromosome 2 map 3323568...    44   4.9    1
(AC116963) Dictyostelium discoideum chromosome 2 map 4657875...    44   4.9    1
(AC010859) Homo sapiens chromosome , clone RP11-3D19, comple...    44   4.9    1
(AC152594) Bos taurus clone CH240-5K7, WORKING DRAFT SEQUENC...    44   4.9    1
(CU928379) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   4.9    1
(AC084223) Homo sapiens chromosome 8 clone RP11-80P10 map 8,...    44   4.9    1
(AC166467) Bos taurus clone CH240-178G22, WORKING DRAFT SEQU...    44   4.9    1
(AC012287) Homo sapiens clone RP11-5H14, *** SEQUENCING IN P...    44   4.9    1
(ET824525) CHO_OF769xp23r1.ab1 CHO_OF Nicotiana tabacum geno...    44   4.9    1
(ET824457) CHO_OF769xp23f1.ab1 CHO_OF Nicotiana tabacum geno...    44   4.9    1
(ET743478) CHO_OF256xm13f1.ab1 CHO_OF Nicotiana tabacum geno...    44   4.9    1
(EK142852) 1095456006274 Global-Ocean-Sampling_GS-31-01-01-1...    44   4.9    1
(AL476880) T. brucei sheared genomic DNA clone 203g08, forwa...    44   4.9    1
(AL475921) T. brucei sheared genomic DNA clone 196c10, forwa...    44   4.9    1
(EJ082971) 1095460066960 Global-Ocean-Sampling_GS-26-01-01-1...    44   4.9    1
(DU102891) JBnY033H04F Brassica napus BAC library JBnY Brass...    44   4.9    1
(CZ528296) SRAA-aac54d12.b1 Strongyloides ratti whole genome...    44   4.9    1
(CL714134) OR_BBa0038M01.r OR_BBa Oryza nivara genomic clone...    44   4.9    1
(DY267370) IC0AAA21BB04RM1 CitNFL Citrus clementina cDNA 5',...    44   4.9    1
(AU062111) Dictyostelium discoideum slug cDNA, clone SLH634.       44   4.9    1
(CN232097) WLB071G12.ab1 WLtestis Gallus gallus cDNA 5', mRN...    44   4.9    1
(BW170028) Ciona intestinalis cDNA, clone:rcinc007f19, 3' en...    44   4.9    1
(BJ324293) Dictyostelium discoideum cDNA clone:dda5k17, 5' e...    44   4.9    1
(FK601828) 454GmaGlobSeed336460 Soybean Seeds Containing Glo...    44   4.9    1
(CP000361) Arcobacter butzleri RM4018, complete genome.            44   4.9    1
(CP000141) Carboxydothermus hydrogenoformans Z-2901, complet...    44   4.9    1
(AC008311) Drosophila melanogaster, chromosome 3R, region 83...    42   5.0    2
(AC159376) Mus musculus 10 BAC RP23-114N21 (Roswell Park Can...    40   5.1    3
(FF702137) XABT110930.rev Gateway compatible cien cDNA libra...    32   5.5    3
(AC190959) Zea mays chromosome 3 clone CH201-44L14; ZMMBBc00...    40   6.6    5
(EU420129) Shinkaia crosnieri mitochondrion, complete genome.      42   8.2    2
(AC109373) Rattus norvegicus clone CH230-252B20, *** SEQUENC...    32   8.6    2
(AC130153) Rattus norvegicus clone CH230-40P15, WORKING DRAF...    32   8.7    2
(AC006763) Caenorhabditis elegans clone Y42H9, *** SEQUENCIN...    32   8.8    2

>(AC116305) Dictyostelium discoideum chromosome 2 map 1005175-1418323
              strain AX4, complete sequence.
          Length = 413138

 Score =  400 bits (202), Expect(4) = e-170
 Identities = 202/202 (100%)
 Strand = Plus / Minus


Query: 43     aacaacaacaacgtcctcttctttatcaactcctgtatcatctgattcagaaacaagtag 102
              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 332685 aacaacaacaacgtcctcttctttatcaactcctgtatcatctgattcagaaacaagtag 332626


Query: 103    taatagtagtggagaatcaaaacactccaaacaaatattaatcaaagaagtttcaaatct 162
              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 332625 taatagtagtggagaatcaaaacactccaaacaaatattaatcaaagaagtttcaaatct 332566


Query: 163    tgaagaaaaattaaaagtaacaaatttaaaacctcactccaccgctttattactacaaaa 222
              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 332565 tgaagaaaaattaaaagtaacaaatttaaaacctcactccaccgctttattactacaaaa 332506


Query: 223    tcaagaaactaccactactggt 244
              ||||||||||||||||||||||
Sbjct: 332505 tcaagaaactaccactactggt 332484

 Score =  196 bits (99), Expect(4) = e-170
 Identities = 99/99 (100%)
 Strand = Plus / Minus


Query: 273    gatgtatttctatcagtaaagaaaatgaagatactaaaaccaaaaaagttagattcctca 332
              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 332455 gatgtatttctatcagtaaagaaaatgaagatactaaaaccaaaaaagttagattcctca 332396


Query: 333    attttggttctatcgataaaaaccaagtttagaataaaa 371
              |||||||||||||||||||||||||||||||||||||||
Sbjct: 332395 attttggttctatcgataaaaaccaagtttagaataaaa 332357

 Score = 38.2 bits (19), Expect(4) = e-170
 Identities = 19/19 (100%)
 Strand = Plus / Minus


Query: 1      ctcttcacctgtaaatgaa 19
              |||||||||||||||||||
Sbjct: 332727 ctcttcacctgtaaatgaa 332709

 Score = 36.2 bits (18), Expect(4) = e-170
 Identities = 18/18 (100%)
 Strand = Plus / Minus


Query: 381    cttaataaaacaataagg 398
              ||||||||||||||||||
Sbjct: 332347 cttaataaaacaataagg 332330

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 486,150,095
Number of extensions: 34754571
Number of successful extensions: 2642402
Number of sequences better than 10.0: 68
Length of query: 523
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 500
Effective length of database: 93,106,754,628
Effective search space: 46553377314000
Effective search space used: 46553377314000
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.15
Homology vs Protein 
Query= Contig-U15153-1 (Contig-U15153-1Q) /CSM_Contig/Contig-U15153-1Q.Seq.d
         (523 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC116305_120(AC116305|pid:none) Dictyostelium discoideum chromos...   163   3e-39
CR382138_427(CR382138|pid:none) Debaryomyces hansenii strain CBS...    33   4.3
(A7TEH5) RecName: Full=Pre-mRNA-splicing factor SPP381;                33   4.3
(Q60287) RecName: Full=Uncharacterized protein MJECL28;  &C64513...    33   5.6
CP000612_1575(CP000612|pid:none) Desulfotomaculum reducens MI-1,...    32   7.3
(P34250) RecName: Full=Uncharacterized protein YKL105C;  &S37932...    32   9.5
BC144019_1(BC144019|pid:none) Homo sapiens synaptonemal complex ...    32   9.5
(Q60295) RecName: Full=Putative type-1 restriction enzyme MjaXP ...    32   9.5
AL358372_3(AL358372|pid:none) Human DNA sequence from clone RP11...    32   9.5
AF273043_1(AF273043|pid:none) Homo sapiens CTCL tumor antigen se...    32   9.5

>AC116305_120(AC116305|pid:none) Dictyostelium discoideum chromosome 2
            map 1005175-1418323 strain AX4, complete sequence.
          Length = 1326

 Score =  163 bits (412), Expect = 3e-39
 Identities = 83/83 (100%), Positives = 83/83 (100%)
 Frame = +2

Query: 113  GESKHSKQILIKEVSNLEEKLKVTNLKPHSTALLLQNQETTTTGKKINSILKKRCISISK 292
            GESKHSKQILIKEVSNLEEKLKVTNLKPHSTALLLQNQETTTTGKKINSILKKRCISISK
Sbjct: 1244 GESKHSKQILIKEVSNLEEKLKVTNLKPHSTALLLQNQETTTTGKKINSILKKRCISISK 1303

Query: 293  ENEDTKTKKVRFLNFGSIDKNQV 361
            ENEDTKTKKVRFLNFGSIDKNQV
Sbjct: 1304 ENEDTKTKKVRFLNFGSIDKNQV 1326

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: 412,782,090
Number of extensions: 5735031
Number of successful extensions: 16939
Number of sequences better than 10.0: 10
Number of HSP's gapped: 16925
Number of HSP's successfully gapped: 10
Length of query: 174
Length of database: 1,051,180,864
Length adjustment: 120
Effective length of query: 54
Effective length of database: 662,793,784
Effective search space: 35790864336
Effective search space used: 35790864336
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: 30 (16.2 bits)
PSORT 

 psg: 0.75  gvh: 0.52  alm: 0.61  top: 0.53  tms: 0.00  mit: 0.47  mip: 0.00
 nuc: 0.06  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 

	 68.0 %: mitochondrial
	 28.0 %: nuclear
	  4.0 %: cytoplasmic

>> prediction for Contig-U15153-1 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) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 1
FC-IC (SUB) 0