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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-U00892-1
Contig ID Contig-U00892-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U00892-1 (Contig-U00892-1Q) /CSM_Contig/Contig-U00892-1Q.Seq.d
CTNTTTTANCGANGGNCTCGGAAATAATAAAAAAGTAGAAATCTTTAAAA
TTNAAGATTTTGAANAATTAATTCGATTATTCNAATTGGAGTATATGGAT
TATTCAATATCCATANANACAAGGGATTATTTTAAAGAATTAAAGAGATA
TATATATTTNCTTCATCTCTTTTCAACCAATAAATTGNCAAATGAAAATG
TGTTACCNATAACTCAAAACTAAATAATAATATTCNACTTTGCNAAANAT
ATTAATAACNTCNCATCAAAATAGAATTGATTANCCNTGCTTTACCNTCA
ACCCNATTTTAATGGCTGNCCTCCCNAGCTTCNAACTANTGCTTGATATT
ATTTANANATAAACAATATTACNAACTTTTCTTATCAACTAATTTTAATT
TATTAATCTTTTTTTAAAAAAAAAAAAGAAAAAAGNAAAAAAATTAAAAA
A
Gap no gap
Contig length 451
Chromosome number (1..6, M) 6
Chromosome length 3595308
Start point 3308552
End point 3309004
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U00892
List of clone(s) 

est1=SFB122Z,1,452
Translated Amino Acid sequence 
XFXXGLGNNKKVEIFKIXDFEXLIRLFXLEYMDYSISIXTRDYFKELKRYIYXLHLFSTN
KLXNENVLPITQN*iiifxfakxinnxxsk*n*lxxlyxqpxfngxppxlxtxa*yylxi
nnitnfsyqliliy*sffkkkkekxkkikk
Translated Amino Acid sequence (All Frames) 
Frame A:
lfxrxxrk**ksrnl*nxrf*xinsiixigvyglfnihxxkglf*rikeiyifxsslfnq
*ixk*kcvtxnsklnnnixlcxxy**xxikielixxalpstxf*wlxsxasnxclilfxx
kqyyxlflstnfnlliff*kkkrkkxkn*k


Frame B:
XFXXGLGNNKKVEIFKIXDFEXLIRLFXLEYMDYSISIXTRDYFKELKRYIYXLHLFSTN
KLXNENVLPITQN*iiifxfakxinnxxsk*n*lxxlyxqpxfngxppxlxtxa*yylxi
nnitnfsyqliliy*sffkkkkekxkkikk


Frame C:
xlxxxseiikk*kslkxkilxn*fdysnwsiwiiqypxxqgiilkn*rdiyixfisfqpi
nxqmkmcyx*lktk**ystlxxilitshqnridxpcftxnpilmaxlpsfxlxldiixx*
tilxtflin*f*finlflkkkkkkxkklk
own update 2004. 6.21
Homology vs CSM-cDNA 
Query= Contig-U00892-1 (Contig-U00892-1Q)
/CSM_Contig/Contig-U00892-1Q.Seq.d
         (451 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U00892-1 (Contig-U00892-1Q) /CSM_Contig/Conti...   642  0.0
Contig-U10041-1 (Contig-U10041-1Q) /CSM_Contig/Conti...    36  0.045
Contig-U09271-1 (Contig-U09271-1Q) /CSM_Contig/Conti...    36  0.045
Contig-U16094-1 (Contig-U16094-1Q) /CSM_Contig/Conti...    34  0.18
Contig-U15948-1 (Contig-U15948-1Q) /CSM_Contig/Conti...    34  0.18
Contig-U11771-1 (Contig-U11771-1Q) /CSM_Contig/Conti...    34  0.18
Contig-U10902-1 (Contig-U10902-1Q) /CSM_Contig/Conti...    34  0.18
Contig-U07510-1 (Contig-U07510-1Q) /CSM_Contig/Conti...    34  0.18
Contig-U16428-1 (Contig-U16428-1Q) /CSM_Contig/Conti...    32  0.70
Contig-U16352-1 (Contig-U16352-1Q) /CSM_Contig/Conti...    32  0.70

>Contig-U00892-1 (Contig-U00892-1Q) /CSM_Contig/Contig-U00892-1Q.Seq.d
          Length = 451

 Score =  642 bits (324), Expect = 0.0
 Identities = 405/405 (100%)
 Strand = Plus / Plus

                                                                       
Query: 4   ttttancganggnctcggaaataataaaaaagtagaaatctttaaaattnaagattttga 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4   ttttancganggnctcggaaataataaaaaagtagaaatctttaaaattnaagattttga 63

                                                                       
Query: 64  anaattaattcgattattcnaattggagtatatggattattcaatatccatananacaag 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 64  anaattaattcgattattcnaattggagtatatggattattcaatatccatananacaag 123

                                                                       
Query: 124 ggattattttaaagaattaaagagatatatatatttncttcatctcttttcaaccaataa 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 124 ggattattttaaagaattaaagagatatatatatttncttcatctcttttcaaccaataa 183

                                                                       
Query: 184 attgncaaatgaaaatgtgttaccnataactcaaaactaaataataatattcnactttgc 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 184 attgncaaatgaaaatgtgttaccnataactcaaaactaaataataatattcnactttgc 243

                                                                       
Query: 244 naaanatattaataacntcncatcaaaatagaattgattanccntgctttaccntcaacc 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 244 naaanatattaataacntcncatcaaaatagaattgattanccntgctttaccntcaacc 303

                                                                       
Query: 304 cnattttaatggctgncctcccnagcttcnaactantgcttgatattatttananataaa 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 304 cnattttaatggctgncctcccnagcttcnaactantgcttgatattatttananataaa 363

                                                        
Query: 364 caatattacnaacttttcttatcaactaattttaatttattaatc 408
           |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 364 caatattacnaacttttcttatcaactaattttaatttattaatc 408


>Contig-U10041-1 (Contig-U10041-1Q) /CSM_Contig/Contig-U10041-1Q.Seq.d
          Length = 1191

 Score = 36.2 bits (18), Expect = 0.045
 Identities = 21/22 (95%)
 Strand = Plus / Plus

                                  
Query: 22   aaataataaaaaagtagaaatc 43
            |||||||||||||| |||||||
Sbjct: 1125 aaataataaaaaagaagaaatc 1146


>Contig-U09271-1 (Contig-U09271-1Q) /CSM_Contig/Contig-U09271-1Q.Seq.d
          Length = 584

 Score = 36.2 bits (18), Expect = 0.045
 Identities = 18/18 (100%)
 Strand = Plus / Plus

                             
Query: 390 taattttaatttattaat 407
           ||||||||||||||||||
Sbjct: 485 taattttaatttattaat 502


  Database: CSM
    Posted date:  Jun 21, 2004 12:56 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: 14,523
Number of Sequences: 8402
Number of extensions: 14523
Number of successful extensions: 1574
Number of sequences better than 10.0: 117
length of query: 451
length of database: 8,075,542
effective HSP length: 16
effective length of query: 435
effective length of database: 7,941,110
effective search space: 3454382850
effective search space used: 3454382850
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. 4.19
Homology vs DNA 
Query= Contig-U00892-1 (Contig-U00892-1Q) /CSM_Contig/Contig-U00892-1Q.Seq.d
         (451 letters)

Database: ddbj_A
           102,105,510 sequences; 101,790,757,118 total letters

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

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

(BJ398925) Dictyostelium discoideum cDNA clone:dds3k05, 3' e...   656   0.0    1
(CR962121) Medicago truncatula chromosome 5 clone mte1-77f5,...    54   0.005  1
(AC125357) Mus musculus BAC clone RP23-235J18 from chromosom...    46   0.032  4
(AC133039) Rattus norvegicus clone CH230-391P7, WORKING DRAF...    46   0.21   3
(AC113657) Rattus norvegicus clone CH230-261A7, WORKING DRAF...    46   0.24   3
(AC155338) Brassica rapa subsp. pekinensis clone KBrH138P04,...    48   0.29   1
(AC189226) Brassica rapa subsp. pekinensis clone KBrB012F17,...    48   0.29   1
(BX876395) AGENAE Rainbow trout multi-tissues-normalized + 2...    48   0.29   1
(BX304146) AGENAE Rainbow trout multi-tissues - normalized +...    48   0.29   1
(BX302085) AGENAE Rainbow trout multi-tissues - normalized +...    48   0.29   1
(AC212767) Solanum lycopersicum DNA sequence from clone LE_H...    34   1.1    6
(AM486517) Vitis vinifera, whole genome shotgun sequence, co...    46   1.1    1
(AE014827) Plasmodium falciparum 3D7 chromosome 14 section 1...    46   1.1    1
(DH609037) Rattus norvegicus DNA, BAC clone: RNB1-137L18, 3'...    46   1.1    1
(EJ809300) 1093017479407 Global-Ocean-Sampling_GS-30-02-01-1...    40   1.4    2
(AZ551569) ENTFT18TR Entamoeba histolytica Sheared DNA Entam...    36   1.8    2
(ER449377) 1092963843361 Global-Ocean-Sampling_GS-35-01-01-1...    40   1.9    2
(BU509636) AGENCOURT_10170793 NIH_MGC_71 Homo sapiens cDNA c...    40   1.9    2
(CZ977179) 179326 Tomato MboI BAC Library Solanum lycopersic...    40   2.0    2
(EJ778064) 1093011121074 Global-Ocean-Sampling_GS-30-02-01-1...    40   2.0    2
(AC005881) citb_79_e_16, complete sequence.                        36   2.4    4
(AC023729) Drosophila melanogaster X BAC RP98-39L4 (Roswell ...    42   2.4    4
(AL137025) Human DNA sequence from clone RP11-106M7 on chrom...    36   2.6    4
(ET449321) fcg2x.pk187.h3.f C. graminicola genomic sequence ...    38   3.2    2
(CR382399) Plasmodium falciparum chromosome 6, complete sequ...    36   3.5    8
(FI211465) CccaBa066-L23TR CccABa Cajanus cajan genomic clon...    36   3.7    2
(AC109832) Oryza sativa (japonica cultivar-group) chromosome...    42   3.7    2
(AC200713) Macaca mulatta  BAC CH250-310E12 (Children's Hosp...    40   4.2    2
(BX323451) Zebrafish DNA sequence from clone DKEY-49H9 in li...    44   4.5    1
(AC122500) Mus musculus BAC clone RP24-409J4 from chromosome...    44   4.5    1
(AC092710) Mus musculus chromosome 13, clone RP23-5A19, comp...    44   4.5    1
(FB744742) Sequence 65 from Patent WO2008011620.                   44   4.5    1
(FB744714) Sequence 37 from Patent WO2008011620.                   44   4.5    1
(FB676006) Sequence 9 from Patent WO2007118704.                    44   4.5    1
(FB676002) Sequence 5 from Patent WO2007118704.                    44   4.5    1
(FB332203) Sequence 10 from Patent WO2007115213.                   44   4.5    1
(FB332197) Sequence 4 from Patent WO2007115213.                    44   4.5    1
(CS448326) Sequence 10 from Patent WO2006117381.                   44   4.5    1
(CS448320) Sequence 4 from Patent WO2006117381.                    44   4.5    1
(GM987246) Sequence 10 from Patent EP2009115.                      44   4.5    1
(GM987240) Sequence 4 from Patent EP2009115.                       44   4.5    1
(GM841799) Sequence 122 from Patent WO2008122447.                  44   4.5    1
(GM841733) Sequence 56 from Patent WO2008122447.                   44   4.5    1
(AC068284) Homo sapiens BAC clone RP11-473K18 from 2, comple...    44   4.5    1
(AC156090) Bos taurus clone CH240-57J9, WORKING DRAFT SEQUEN...    44   4.5    1
(FP085443) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   4.5    1
(FP085395) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    44   4.5    1
(DQ855264) Glycine max clone BAC GM-WBb0027L15, *** SEQUENCI...    44   4.5    1
(CU693461) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   4.5    1
(AC068275) Homo sapiens chromosome 2 clone RP11-121G13, WORK...    44   4.5    1
(BX571956) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    44   4.5    1
(EK126049) 1092980901453 Global-Ocean-Sampling_GS-31-01-01-1...    44   4.5    1
(CP000414) Leuconostoc mesenteroides subsp. mesenteroides AT...    44   4.5    1
(BJ394304) Dictyostelium discoideum cDNA clone:dds34h17, 5' ...    32   4.7    3
(DQ158857) Bigelowiella natans nucleomorph chromosome 2, com...    36   4.7    6
(BJ364269) Dictyostelium discoideum cDNA clone:ddc31h05, 5' ...    32   4.8    3
(BJ370266) Dictyostelium discoideum cDNA clone:ddc53c14, 5' ...    32   4.9    3
(BD460515) Diagnosis of Diseases Associated with Cell Cycle.       38   5.2    3
(BD452437) Diagnosis of Diseases Associated with Cell Cycle.       38   5.2    3
(AX348834) Sequence 292 from Patent WO0202807.                     38   5.2    3
(AX346717) Sequence 1788 from Patent WO0200928.                    38   5.2    3
(AX252051) Sequence 312 from Patent WO0168911.                     38   5.2    3
(CU150275) Equus caballus GSS, BAC clone CH241-274O18, T7 en...    38   5.6    2
(CZ459061) MCF747c18TF Human MCF7 breast cancer cell line li...    34   6.2    2
(ED666907) GM_WBa0094O11.r GM_WBa Glycine max genomic clone ...    40   6.4    2
(ED666878) GM_WBa0094N11.r GM_WBa Glycine max genomic clone ...    40   6.5    2
(EJ936945) 1093018843364 Global-Ocean-Sampling_GS-30-02-01-1...    40   6.5    2
(EJ797387) 1093017407983 Global-Ocean-Sampling_GS-30-02-01-1...    38   6.8    2
(CZ528015) SRAA-aac52f06.b1 Strongyloides ratti whole genome...    34   6.9    2
(EJ852839) 1093017900468 Global-Ocean-Sampling_GS-30-02-01-1...    40   7.0    2
(EK076239) 1092961043635 Global-Ocean-Sampling_GS-31-01-01-1...    36   7.7    2
(Z81528) Caenorhabditis elegans Cosmid F35E2.                      32   9.0    2
(CU856681) Zebrafish DNA sequence from clone CH73-361P23 in ...    36   9.2    2

>(BJ398925) Dictyostelium discoideum cDNA clone:dds3k05, 3' end,
           single read.
          Length = 452

 Score =  656 bits (331), Expect = 0.0
 Identities = 412/412 (100%)
 Strand = Plus / Minus


Query: 4   ttttancganggnctcggaaataataaaaaagtagaaatctttaaaattnaagattttga 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 449 ttttancganggnctcggaaataataaaaaagtagaaatctttaaaattnaagattttga 390


Query: 64  anaattaattcgattattcnaattggagtatatggattattcaatatccatananacaag 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 389 anaattaattcgattattcnaattggagtatatggattattcaatatccatananacaag 330


Query: 124 ggattattttaaagaattaaagagatatatatatttncttcatctcttttcaaccaataa 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 329 ggattattttaaagaattaaagagatatatatatttncttcatctcttttcaaccaataa 270


Query: 184 attgncaaatgaaaatgtgttaccnataactcaaaactaaataataatattcnactttgc 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 269 attgncaaatgaaaatgtgttaccnataactcaaaactaaataataatattcnactttgc 210


Query: 244 naaanatattaataacntcncatcaaaatagaattgattanccntgctttaccntcaacc 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 209 naaanatattaataacntcncatcaaaatagaattgattanccntgctttaccntcaacc 150


Query: 304 cnattttaatggctgncctcccnagcttcnaactantgcttgatattatttananataaa 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 149 cnattttaatggctgncctcccnagcttcnaactantgcttgatattatttananataaa 90


Query: 364 caatattacnaacttttcttatcaactaattttaatttattaatcttttttt 415
           ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 89  caatattacnaacttttcttatcaactaattttaatttattaatcttttttt 38

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 497,173,194
Number of extensions: 35440597
Number of successful extensions: 2740616
Number of sequences better than 10.0: 74
Length of query: 451
Length of database: 101,790,757,118
Length adjustment: 23
Effective length of query: 428
Effective length of database: 99,442,330,388
Effective search space: 42561317406064
Effective search space used: 42561317406064
X1: 11 (21.8 bits)
S2: 21 (42.1 bits)
protein update 2009. 7.14
Homology vs Protein 
Query= Contig-U00892-1 (Contig-U00892-1Q) /CSM_Contig/Contig-U00892-1Q.Seq.d
         (451 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: 352,507,714
Number of extensions: 3862036
Number of successful extensions: 4448
Number of sequences better than 10.0: 0
Number of HSP's gapped: 4448
Number of HSP's successfully gapped: 0
Length of query: 150
Length of database: 1,051,180,864
Length adjustment: 112
Effective length of query: 38
Effective length of database: 688,686,256
Effective search space: 26170077728
Effective search space used: 26170077728
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: 0.61  gvh: 0.41  alm: 0.48  top: 0.53  tms: 0.00  mit: 0.15  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 

	 40.0 %: cytoplasmic
	 32.0 %: nuclear
	 16.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U00892-1 is cyt
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