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
VSJ136
Library VS
(Link to library)
Clone ID VSJ136
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U06977-1
Original site URL
Representative seq. ID VSJ136P
(Link to Original site)
Representative DNA sequence 
>VSJ136 (VSJ136Q) /CSM/VS/VSJ1-B/VSJ136Q.Seq.d/
CTCTAATNAATTTCACACAGGCACATCAATAAAAAAAATACTGTTGTTTTAAATTTGTTA
TATAATAATAATAATAATAATAATAATAATAAACTTTTAAAAATATTAAAATTCATTAAA
TCATAAAAAAAATTTGCATTTAAGCACCATATATAAAAAAAAAAXXXXXXXXXXTTGGNT
TTTTTTTCTCNTTTTTTTTTCAAAAATTTTTGAATTTAAAT
sequence update 2001. 3.22
Translated Amino Acid sequence 
snxfhtgtsikkillf*icyiiiiiiiiiinf*ky*NSLNHKKNLHLSTIYKKK---

---WXFFLXFFSKIFEFK
Translated Amino Acid sequence (All Frames) 
Frame A:
l*xishrhinkkntvvlnllynnnnnnnnnkllkilkfiks*kkfafkhhi*kk---

---lxffsxfffknf*i*

Frame B:
snxfhtgtsikkillf*icyiiiiiiiiiinf*ky*NSLNHKKNLHLSTIYKKK---

---WXFFLXFFSKIFEFK

Frame C:
lxnftqahq*kkyccfkfvi**********tfknikih*iikkici*apyikkk---

---gfffsfffqkflnln
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ136 (VSJ136Q) /CSM/VS/VSJ1-B/VSJ136Q.Seq.d/                         76   2e-13
VSJ862 (VSJ862Q) /CSM/VS/VSJ8-C/VSJ862Q.Seq.d/                         36   0.21
VHI128 (VHI128Q) /CSM/VH/VHI1-B/VHI128Q.Seq.d/                         36   0.21
SHB385 (SHB385Q) /CSM/SH/SHB3-D/SHB385Q.Seq.d/                         36   0.21
SFJ737 (SFJ737Q) /CSM/SF/SFJ7-B/SFJ737Q.Seq.d/                         36   0.21
SFJ549 (SFJ549Q) /CSM/SF/SFJ5-C/SFJ549Q.Seq.d/                         36   0.21
SFD291 (SFD291Q) /CSM/SF/SFD2-D/SFD291Q.Seq.d/                         36   0.21
SFA634 (SFA634Q) /CSM/SF/SFA6-B/SFA634Q.Seq.d/                         36   0.21
CHI135 (CHI135Q) /CSM/CH/CHI1-B/CHI135Q.Seq.d/                         36   0.21
CFA711 (CFA711Q) /CSM/CF/CFA7-A/CFA711Q.Seq.d/                         36   0.21
own update 2004.12.25
Homology vs DNA 

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

AC116977|AC116977.2 Dictyostelium discoideum chromosome 2 map 5515173-5817331 strain AX4, complete sequence.    64  3e-23  5
AC107095|AC107095.4 Rattus norvegicus clone CH230-235O7, *** SEQUENCING IN PROGRESS ***, 1 ordered piece.    46  0.17  1
AF244346|AF244346.1 Sargassum polycystum ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) and ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit (rbcS) genes, partial cds; chloroplast genes for chloroplast products.    46  0.17  1
AF244338|AF244338.1 Sargassum patens ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) and ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit (rbcS) genes, partial cds; chloroplast genes for chloroplast products.    46  0.17  1
AF076689|AF076689.1 Sargassum echinocarpum ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) and ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit (rbcS) genes, chloroplast genes encoding chloroplast proteins, partial cds.    46  0.17  1
AC113767|AC113767.5 Rattus norvegicus clone CH230-88H11, WORKING DRAFT SEQUENCE, 2 unordered pieces.    46  0.17  1
AC123118|AC123118.4 Rattus norvegicus clone CH230-168O8, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    46  0.17  1
AF244342|AF244342.1 Sargassum sp. strain nep104 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) and ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit (rbcS) genes, partial cds; chloroplast genes for chloroplast products.    46  0.17  1
AF244336|AF244336.1 Sargassum echinocarpum strain nep95 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) and ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit (rbcS) genes, partial cds; chloroplast genes for chloroplast products.    46  0.17  1
AF244337|AF244337.1 Sargassum binderi strain nep82 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit (rbcL) and ribulose-1,5-bisphosphate carboxylase/oxygenase small subunit (rbcS) genes, partial cds; chloroplast genes for chloroplast products.    46  0.17  1
dna update 2003. 7.17
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: 3019103
Number of Hits to DB: 134,800,746
protein update 2009. 3.25
PSORT 

 psg: 0.77  gvh: 0.51  alm: 0.54  top: 0.53  tms: 0.00  mit: 0.31  mip: 0.00
 nuc: 0.12  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 

	 44.0 %: nuclear
	 36.0 %: cytoplasmic
	 12.0 %: cytoskeletal
	  8.0 %: mitochondrial

>> prediction for VSJ136 is nuc
5' end seq. ID VSJ136F
5' end seq. 
>VSJ136F.Seq
CTCTAATNAATTTCACACAGGCACATCAATAAAAAAAATACTGTTGTTTTAAATTTGTTA
TATAATAATAATAATAATAATAATAATAATAAACTTTTAAAAATATTAAAATTCATTAAA
TCATAAAAAAAATTTGCATTTAAGCACCATATATAAAAAAAAAA----------
Length of 5' end seq. 164
3' end seq. ID VSJ136Z
3' end seq. 
>VSJ136Z.Seq
----------TTGGNTTTTTTTTCTCNTTTTTTTTTCAAAAATTTTTGAATTTAAAT
Length of 3' end seq. 47
Connected seq. ID VSJ136P
Connected seq. 
>VSJ136P.Seq
CTCTAATNAATTTCACACAGGCACATCAATAAAAAAAATACTGTTGTTTTAAATTTGTTA
TATAATAATAATAATAATAATAATAATAATAAACTTTTAAAAATATTAAAATTCATTAAA
TCATAAAAAAAATTTGCATTTAAGCACCATATATAAAAAAAAAA----------TTGGNT
TTTTTTTCTCNTTTTTTTTTCAAAAATTTTTGAATTTAAAT
Length of connected seq. 211
Full length Seq ID -
Full length Seq. -
Length of full length seq. -