NBDC - アーカイブトップ - ヘルプ
データベースの説明 | データ項目の説明 | 利用許諾 | ヘルプ
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
Description of this DB | Description of data items | Download | License
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
VSA252
Library VS
(Link to library)
Clone ID VSA252
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13697-1
Original site URL
Representative seq. ID VSA252E
(Link to Original site)
Representative DNA sequence 
>VSA252 (VSA252Q) /CSM/VS/VSA2-C/VSA252Q.Seq.d/
AAAAATAATTTATAGATAAAATGTTAATTGCATATGCAGAAAGTCTACATACCGGAGTTC
AACCAGATATTACTTATTTAACTTTACTTAAAGGTTTTGGTTTTGATTCAAATTGTAAAT
GGACATTACTAGACAATTCAAAAAATGATGTAAATTTAAATTCTAAAATTTCACCTGGCG
AATATAAATTTGGTAGTTGTGGTGACATTGGTTTAATAATGTTAAATATTAAAAAATAAT
AATTTAAATAAAATAAATAAATAATTTGGTATGTGTGTGTGGTGTATACCACACATCATT
GCTTTTTCAGATTATTTGGGTGTGTTCCTCCTCTCCATCAAAATCTTTAATAAACTTCAA
CAAATAATATTTATTCTTTCCAACATAAAATCCAAAAAAAAAAAAAAAAAAAAAAA
sequence update 2000. 2.29
Translated Amino Acid sequence 
k*FIDKMLIAYAESLHTGVQPDITYLTLLKGFGFDSNCKWTLLDNSKNDVNLNSKISPGE
YKFGSCGDIGLIMLNIKK**fk*nk*iiwyvcvvytthhcffrlfgcvpplhqnl**tst
nniysfqhkiqkkkkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
knnl*ikc*lhmqkvyipefnqilli*lylkvlvliqivnghy*tiqkmm*i*ilkfhla
ninlvvvvtlv**c*ilknnnlnkink*fgmcvwciphiiafsdylgvfllsikifnklq
qiifilsnikskkkkkkk


Frame B:
kiiyr*nvncicrkstyrsstryylfnft*rfwf*fkl*mditrqfkk*ckfkf*nftwr
i*iw*lw*hwfnnvky*kiii*ik*innlvcvcgvyhtsllfqiiwvcssspskslinfn
k*ylffpt*npkkkkkkk


Frame C:
k*FIDKMLIAYAESLHTGVQPDITYLTLLKGFGFDSNCKWTLLDNSKNDVNLNSKISPGE
YKFGSCGDIGLIMLNIKK**fk*nk*iiwyvcvvytthhcffrlfgcvpplhqnl**tst
nniysfqhkiqkkkkkkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSK436 (VSK436Q) /CSM/VS/VSK4-B/VSK436Q.Seq.d/                        418   e-116
VSK386 (VSK386Q) /CSM/VS/VSK3-D/VSK386Q.Seq.d/                        418   e-116
VSG266 (VSG266Q) /CSM/VS/VSG2-C/VSG266Q.Seq.d/                        418   e-116
VSF867 (VSF867Q) /CSM/VS/VSF8-C/VSF867Q.Seq.d/                        418   e-116
VSA252 (VSA252Q) /CSM/VS/VSA2-C/VSA252Q.Seq.d/                        418   e-116
VHO421 (VHO421Q) /CSM/VH/VHO4-A/VHO421Q.Seq.d/                        418   e-116
VHK113 (VHK113Q) /CSM/VH/VHK1-A/VHK113Q.Seq.d/                        418   e-116
VHJ327 (VHJ327Q) /CSM/VH/VHJ3-B/VHJ327Q.Seq.d/                        418   e-116
VHC542 (VHC542Q) /CSM/VH/VHC5-B/VHC542Q.Seq.d/                        418   e-116
VSB216 (VSB216Q) /CSM/VS/VSB2-A/VSB216Q.Seq.d/                        416   e-115
own update 2003. 1. 8
Homology vs DNA 

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

AP005430|AP005430.1 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 9, PAC clone:P0705B06, WORKING DRAFT SEQUENCE, 1 ordered pieces.    52  5e-04  3
AP005577|AP005577.1 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 9, BAC clone:OJ1655_B12, WORKING DRAFT SEQUENCE, 1 ordered pieces.    52  0.005  1
AP004777|AP004777.1 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 2, PAC clone:P0458B05, WORKING DRAFT SEQUENCE, 1 ordered pieces.    44  0.025  6
BZ921801|BZ921801.1 CH240_119L19.TJ CHORI-240 Bos taurus genomic clone CH240_119L19, DNA sequence.    34  0.14  3
BX323447|BX323447.4 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone.    36  0.20  6
AF481054|AF481054.1 Mus musculus chromosome 17 clone 201h10 strain 129S6/SvEvTac, *** SEQUENCING IN PROGRESS ***, 4 ordered pieces.    46  0.34  1
AC007698|AC007698.1 Homo sapiens chromosome 4, WORKING DRAFT SEQUENCE, 32 unordered pieces.    46  0.34  1
AC116804|AC116804.4 Mus musculus clone RP24-343C24, WORKING DRAFT SEQUENCE, 9 unordered pieces.    46  0.34  1
AC055861|AC055861.2 Homo sapiens chromosome 15 clone RP11-95F11 map 15, WORKING DRAFT SEQUENCE, 29 unordered pieces.    42  0.39  6
AC122496|AC122496.2 Mus musculus chromosome 5 clone RP24-400K16, complete sequence.    50  0.47  5
dna update 2003. 9.14
Homology vs Protein 

 ***** 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: 553,868,238
protein update 2009. 7.22
PSORT 

 psg: 0.75  gvh: 0.53  alm: 0.49  top: 0.53  tms: 0.00  mit: 0.24  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 %: cytoplasmic
	 48.0 %: nuclear
	  4.0 %: mitochondrial

>> prediction for VSA252 is cyt
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID -
3' end seq. -
Length of 3' end seq. -
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID VSA252E
Full length Seq. 
>VSA252E.Seq
AAAAATAATTTATAGATAAAATGTTAATTGCATATGCAGAAAGTCTACATACCGGAGTTC
AACCAGATATTACTTATTTAACTTTACTTAAAGGTTTTGGTTTTGATTCAAATTGTAAAT
GGACATTACTAGACAATTCAAAAAATGATGTAAATTTAAATTCTAAAATTTCACCTGGCG
AATATAAATTTGGTAGTTGTGGTGACATTGGTTTAATAATGTTAAATATTAAAAAATAAT
AATTTAAATAAAATAAATAAATAATTTGGTATGTGTGTGTGGTGTATACCACACATCATT
GCTTTTTCAGATTATTTGGGTGTGTTCCTCCTCTCCATCAAAATCTTTAATAAACTTCAA
CAAATAATATTTATTCTTTCCAACATAAAATCCAAAAAAAAAAAAAAAAAAAAAAA
Length of full length seq. 416