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
VSF111
Library VS
(Link to library)
Clone ID VSF111
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig -
Original site URL
Representative seq. ID VSF111P
(Link to Original site)
Representative DNA sequence 
>VSF111 (VSF111Q) /CSM/VS/VSF1-A/VSF111Q.Seq.d/
AAACTAATTATAAGCAACACGACATATATGTAAATATAAAAAAAAAAAAAAATTAAAAAA
AAAAXXXXXXXXXXAAACTAATTATAAGCAACACG
sequence update 2001. 3.22
Translated Amino Acid sequence 
n*l*ATRHICKYKKKKKLKKK---

---KLIISNT
Translated Amino Acid sequence (All Frames) 
Frame A:
kliisnttym*i*kkkkikkk---

---KLIISNT

Frame B:
n*l*ATRHICKYKKKKKLKKK---

---n*l*at

Frame C:
tnykqhdiyvnikkkkn*kk---

---tnykqh
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSH350 (VSH350Q) /CSM/VS/VSH3-C/VSH350Q.Seq.d/                         74   4e-13
VSF111 (VSF111Q) /CSM/VS/VSF1-A/VSF111Q.Seq.d/                         74   4e-13
VSI845 (VSI845Q) /CSM/VS/VSI8-B/VSI845Q.Seq.d/                         44   3e-04
VSG352 (VSG352Q) /CSM/VS/VSG3-C/VSG352Q.Seq.d/                         30   5.0
own update 2001. 3.25
Homology vs DNA 

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

AL606601|AL606601.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0055H05.    42  1.00  1
AL606597|AL606597.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBb0045P24.    42  1.00  1
AP003979|AP003979.1 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 2, BAC clone:OJ1014_G06, WORKING DRAFT SEQUENCE, 1 ordered pieces.    40  3.9  1
AP004842|AP004842.1 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 2, PAC clone:P0683H08, WORKING DRAFT SEQUENCE, 1 ordered piece.    40  3.9  1
AP005803|AP005803.1 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 2, BAC clone:OSJNBa0060K08, WORKING DRAFT SEQUENCE, 1 ordered pieces.    40  3.9  1
AP006160|AP006160.1 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 2, BAC clone:B1178F07, WORKING DRAFT SEQUENCE, 1 ordered piece.    40  3.9  1
AC115183|AC115183.4 Rattus norvegicus clone CH230-58J14, WORKING DRAFT SEQUENCE, 3 unordered pieces.    38     16  1
AJ513068|AJ513068.1 Gossypium hirsutum EST, clone su124h11r3.     38     16  1
dna update 2003. 8.23
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: 3268448
Number of Hits to DB: 58,304,058
protein update 2009. 7.31
PSORT 

 psg: 0.27  gvh: -0.16  alm: 0.76  top: 0.53  tms: 0.00  mit: 0.52  mip: 0.00
 nuc: 0.49  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 

	 60.0 %: nuclear
	 28.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for VSF111 is nuc
5' end seq. ID VSF111F
5' end seq. 
>VSF111F.Seq
AAACTAATTATAAGCAACACGACATATATGTAAATATAAAAAAAAAAAAAAATTAAAAAA
AAAA----------
Length of 5' end seq. 64
3' end seq. ID VSF111Z
3' end seq. 
>VSF111Z.Seq
----------AAACTAATTATAAGCAACACG
Length of 3' end seq. 21
Connected seq. ID VSF111P
Connected seq. 
>VSF111P.Seq
AAACTAATTATAAGCAACACGACATATATGTAAATATAAAAAAAAAAAAAAATTAAAAAA
AAAA----------AAACTAATTATAAGCAACACG
Length of connected seq. 85
Full length Seq ID -
Full length Seq. -
Length of full length seq. -