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
VSC235
Library VS
(Link to library)
Clone ID VSC235
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U16307-1
Original site URL
Representative seq. ID VSC235Z
(Link to Original site)
Representative DNA sequence 
>VSC235 (VSC235Q) /CSM/VS/VSC2-B/VSC235Q.Seq.d/
XXXXXXXXXXATAATAATGATAAAAACAATAATAATAATAATAATAATAATAATAATAAT
AATAATAATAATAATAATAATAATAATAATAATAATAATAGTATACATGAAGGAAGTGAT
ATAAATAATTTAAATTTACCATATATAAGTGATAATAATAGTTTATTAAAATCAAGTATT
AATTCAAATAGATTAATGAGTCCTGATCAAGATGATATTATTGAAGATAATTTATTTAGT
GAATTAAGTGATAAAGATACTGATGATTTTTCAAATGATTTATATAAAGATTCTGATGGT
CAATTAAAATCATAAATTAAAAAAC
sequence update 2000. 9.22
Translated Amino Acid sequence 
---NNDKNNNNNNNNNNNNNNNNNNNNNNNNNSIHEGSDINNLNLPYISDNNSLLKSSIN
SNRLMSPDQDDIIEDNLFSELSDKDTDDFSNDLYKDSDGQLKS*ikk
Translated Amino Acid sequence (All Frames) 
Frame A:
---****kq************************yt*rk*yk*fkftiyk****fikiky*
fk*ines*sr*yy*r*fi**ik**ry**ffk*fi*rf*wsikiin*k


Frame B:
---NNDKNNNNNNNNNNNNNNNNNNNNNNNNNSIHEGSDINNLNLPYISDNNSLLKSSIN
SNRLMSPDQDDIIEDNLFSELSDKDTDDFSNDLYKDSDGQLKS*ikk


Frame C:
---imiktiiiiiiiiiiiiiiiiiiiiiiiivymkevi*ii*iyhi*viiivy*nqvli
qid**vlikmillkiiylvn*vikilmifqmiyikilmvn*nhklkn
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSC235 (VSC235Q) /CSM/VS/VSC2-B/VSC235Q.Seq.d/                        446   e-125
CHR334 (CHR334Q) /CSM/CH/CHR3-B/CHR334Q.Seq.d/                         42   0.005
CHJ893 (CHJ893Q) /CSM/CH/CHJ8-D/CHJ893Q.Seq.d/                         42   0.005
VHM272 (VHM272Q) /CSM/VH/VHM2-C/VHM272Q.Seq.d/                         38   0.079
VFN225 (VFN225Q) /CSM/VF/VFN2-B/VFN225Q.Seq.d/                         38   0.079
VFK542 (VFK542Q) /CSM/VF/VFK5-B/VFK542Q.Seq.d/                         38   0.079
VFI527 (VFI527Q) /CSM/VF/VFI5-B/VFI527Q.Seq.d/                         38   0.079
SHJ465 (SHJ465Q) /CSM/SH/SHJ4-C/SHJ465Q.Seq.d/                         38   0.079
SHF605 (SHF605Q) /CSM/SH/SHF6-A/SHF605Q.Seq.d/                         38   0.079
SHD374 (SHD374Q) /CSM/SH/SHD3-D/SHD374Q.Seq.d/                         38   0.079
own update 2003. 1. 9
Homology vs DNA 

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

AC117076|AC117076.2 Dictyostelium discoideum chromosome 2 map 5862124-6045772 strain AX4, complete sequence.    38  3e-05  8
AC006281|AC006281.8 Plasmodium falciparum chromosome 12 clone 3D7, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    38  0.015  9
AC025724|AC025724.3 Caenorhabditis elegans cosmid Y67D8C, complete sequence.    40  0.030  4
AC117072|AC117072.2 Dictyostelium discoideum chromosome 2 map 3323568-3470138 strain AX4, complete sequence.    40  0.041  11
AC107856|AC107856.7 Mus musculus, clone RP23-10E23, complete sequence.    48  0.066  1
AF303741|AF303741.1 Chilo iridescent virus complete genome.       38  0.072  7
AL844509|AL844509.1 Plasmodium falciparum chromosome 13.          34  0.082  10
AE002145|AE002145.1 Ureaplasma urealyticum section 46 of 59 of the complete genome.    32  0.093  5
AZ970468|AZ970468.1 2M0243D07R Mouse 10kb plasmid UUGC2M library Mus musculus genomic clone UUGC2M0243D07 R, DNA sequence.    36  0.12  2
AZ977796|AZ977796.1 2M0253O16R Mouse 10kb plasmid UUGC2M library Mus musculus genomic clone UUGC2M0253O16 R, DNA sequence.    36  0.13  2
dna update 2003. 8.16
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AL844506_218(AL844506|pid:none) Plasmodium falciparum 3D7 chromo...    33   2.4
protein update 2009. 7.29
PSORT 

 psg: 0.41  gvh: 0.30  alm: 0.60  top: 0.53  tms: 0.00  mit: 0.18  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 

	 56.0 %: cytoplasmic
	 24.0 %: nuclear
	 12.0 %: mitochondrial
	  8.0 %: cytoskeletal

>> prediction for VSC235 is cyt
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID VSC235Z
3' end seq. 
>VSC235Z.Seq
----------ATAATAATGATAAAAACAATAATAATAATAATAATAATAATAATAATAAT
AATAATAATAATAATAATAATAATAATAATAATAATAATAGTATACATGAAGGAAGTGAT
ATAAATAATTTAAATTTACCATATATAAGTGATAATAATAGTTTATTAAAATCAAGTATT
AATTCAAATAGATTAATGAGTCCTGATCAAGATGATATTATTGAAGATAATTTATTTAGT
GAATTAAGTGATAAAGATACTGATGATTTTTCAAATGATTTATATAAAGATTCTGATGGT
CAATTAAAATCATAAATTAAAAAAC
Length of 3' end seq. 315
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -