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
VSH237
Library VS
(Link to library)
Clone ID VSH237
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U06850-1
Original site URL
Representative seq. ID VSH237P
(Link to Original site)
Representative DNA sequence 
>VSH237 (VSH237Q) /CSM/VS/VSH2-B/VSH237Q.Seq.d/
ACGCGTCCGAAAAAAAACGGTAGCTAAATTTAAAGGCGAATTATTAATTGAAAATATAGT
AGAGGAATTTGTAAAGGCTTCCAAAGATCAAGGAGAAGTAGTGAAAGAAAAATGGGCACT
ATATAAAGAAGTGCGATATGCAATAAGTTGTAATACACGAAAAGGTCATCATAAAAGTTT
TGTAGAACAAAAATTAAAAGCAACTCAAAGAAGAAAATGGTATTAAATTGGAGAGGAGTA
AAAAGTAGATTATATAGTGGAAAACGAAGAATAGAATGGAAGAAATAAAAGAAACTGTTA
AAAAAAAAAANTTAAAAAAAAAAAAAAATTTAAAAAAAAAAXXXXXXXXXXAAAAAAAAC
GGTAGCTNAATTTAAAGGCGAATTATTAATTGNAAATATAGTAGAGGAATTTGTAAAGGC
TTCCAAAGANCAAGGAGAAGTAGTGAAANAAAAATGGGCACTATATAAANAAGTGCGATA
TGCAATAAGTTGTAATACACGAAAAGGTCATCATAAAAGTTTTGTAGAACAAAAATTAAA
AGCNGACTCAAAGAAGAAAATGGTATTAAATTGGAGAGGAGTAAAAAGTAGATTANATAG
TGNAAACGAAGAATAGGAANGGAAGTAAATAAAAGAAACTGTTAAAAAAAAAAAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
asekkr*lnlkany*lki**rnl*rlpkikek**kknghyikkcdmq*vvihekviikvl
*nkn*kqlkeengiklerskk*ii*WKTKNRMEEIKETVKKKXLKKKKNLKKK---

---KKTVAXFKGELLIXNIVEEFVKASKXQGEVVKXKWALYKXVRYAISCNTRKGHHKSF
VEQKLKADSKKKMVLNWRGVKSRLXSXNEE*exk*iketvkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
trpkkngs*i*rriin*kysrgickgfqrsrrsserkmgti*rsaicnkl*ytkrss*kf
crtkiksnskkkmvlnwrgvksrlysgkrriewkk*kkllkkkx*kkkki*kk---

---kkngsxi*rriinxkysrgickgfqrxrrssexkmgti*xsaicnkl*ytkrss*kf
crtkiksxlkeengiklerskk*ix*xkrrigxevnkrnc*kkk

Frame B:
rvrkktvakfkgellieniveefvkaskdqgevvkekwalykevryaiscntrkghhksf
veqklkatqrrkwy*igee*kvdyivenee*ngrnkrnc*kkkxkkkkkfkkk---

---KKTVAXFKGELLIXNIVEEFVKASKXQGEVVKXKWALYKXVRYAISCNTRKGHHKSF
VEQKLKADSKKKMVLNWRGVKSRLXSXNEE*exk*iketvkkkk

Frame C:
asekkr*lnlkany*lki**rnl*rlpkikek**kknghyikkcdmq*vvihekviikvl
*nkn*kqlkeengiklerskk*ii*WKTKNRMEEIKETVKKKXLKKKKNLKKK---

---kkr*lnlkany*lxi**rnl*rlpkxkek**xknghyixkcdmq*vvihekviikvl
*nkn*kxtqrrkwy*igee*kvdxivxtknrxgsk*kkllkkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSH237 (VSH237Q) /CSM/VS/VSH2-B/VSH237Q.Seq.d/                        559   e-158
MIT-GENOME (MIT-GENOMEQ) /CSM/OTHERS/MIT-GENOMEQ.Seq.d/               523   e-147
VSJ788 (VSJ788Q) /CSM/VS/VSJ7-D/VSJ788Q.Seq.d/                         54   3e-06
VSJ730 (VSJ730Q) /CSM/VS/VSJ7-B/VSJ730Q.Seq.d/                         54   3e-06
VSI168 (VSI168Q) /CSM/VS/VSI1-C/VSI168Q.Seq.d/                         54   3e-06
VSF487 (VSF487Q) /CSM/VS/VSF4-D/VSF487Q.Seq.d/                         54   3e-06
VSF255 (VSF255Q) /CSM/VS/VSF2-C/VSF255Q.Seq.d/                         54   3e-06
VSD543 (VSD543Q) /CSM/VS/VSD5-B/VSD543Q.Seq.d/                         54   3e-06
VHP648 (VHP648Q) /CSM/VH/VHP6-B/VHP648Q.Seq.d/                         54   3e-06
VFO694 (VFO694Q) /CSM/VF/VFO6-D/VFO694Q.Seq.d/                         54   3e-06
own update 2004.12.25
Homology vs DNA 

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

(AU267118) Dictyostelium discoideum vegetative cDNA clone:VS...   559   e-155  1
(AB000109) Dictyostelium discoideum mitochondrial DNA, compl...   511   e-142  2
(D21196) Dictyostelium discoideum mitochondrial DNA.              511   e-142  2
(AU267119) Dictyostelium discoideum vegetative cDNA clone:VS...   509   e-140  1
(DQ336395) Dictyostelium citrinum mitochondrion, complete ge...   115   2e-40  3
(U48706) Dictyostelium discoideum small aggregate formation ...    54   0.007  1
(M19469) Dictyostelium discoideum 109 gene 3, complete cds.        54   0.007  1
(AU270480) Dictyostelium discoideum vegetative cDNA clone:VS...    54   0.007  1
(AU270378) Dictyostelium discoideum vegetative cDNA clone:VS...    54   0.007  1
(AU268259) Dictyostelium discoideum vegetative cDNA clone:VS...    54   0.007  1
dna update 2009. 6. 6
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q23887) RecName: Full=Ribosomal protein S7, mitochondrial;  &AB...   147   3e-34
(Q2LCR8) RecName: Full=Ribosomal protein S7, mitochondrial;  &DQ...   103   5e-21
(Q23888) RecName: Full=60S ribosomal protein L2, mitochondrial; ...    44   0.005
AF078538_1(AF078538|pid:none) Pestivirus type 1 strain DCP polym...    35   1.4
protein update 2009. 3.23
PSORT 

 psg: 0.46  gvh: 0.40  alm: 0.48  top: 0.53  tms: 0.00  mit: 0.21  mip: 0.02
 nuc: 0.39  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 

	 68.0 %: nuclear
	 20.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for VSH237 is nuc
5' end seq. ID VSH237F
5' end seq. 
>VSH237F.Seq
ACGCGTCCGAAAAAAAACGGTAGCTAAATTTAAAGGCGAATTATTAATTGAAAATATAGT
AGAGGAATTTGTAAAGGCTTCCAAAGATCAAGGAGAAGTAGTGAAAGAAAAATGGGCACT
ATATAAAGAAGTGCGATATGCAATAAGTTGTAATACACGAAAAGGTCATCATAAAAGTTT
TGTAGAACAAAAATTAAAAGCAACTCAAAGAAGAAAATGGTATTAAATTGGAGAGGAGTA
AAAAGTAGATTATATAGTGGAAAACGAAGAATAGAATGGAAGAAATAAAAGAAACTGTTA
AAAAAAAAAANTTAAAAAAAAAAAAAAATTTAAAAAAAAAA----------
Length of 5' end seq. 341
3' end seq. ID VSH237Z
3' end seq. 
>VSH237Z.Seq
----------AAAAAAAACGGTAGCTNAATTTAAAGGCGAATTATTAATTGNAAATATAG
TAGAGGAATTTGTAAAGGCTTCCAAAGANCAAGGAGAAGTAGTGAAANAAAAATGGGCAC
TATATAAANAAGTGCGATATGCAATAAGTTGTAATACACGAAAAGGTCATCATAAAAGTT
TTGTAGAACAAAAATTAAAAGCNGACTCAAAGAAGAAAATGGTATTAAATTGGAGAGGAG
TAAAAAGTAGATTANATAGTGNAAACGAAGAATAGGAANGGAAGTAAATAAAAGAAACTG
TTAAAAAAAAAAAA
Length of 3' end seq. 304
Connected seq. ID VSH237P
Connected seq. 
>VSH237P.Seq
ACGCGTCCGAAAAAAAACGGTAGCTAAATTTAAAGGCGAATTATTAATTGAAAATATAGT
AGAGGAATTTGTAAAGGCTTCCAAAGATCAAGGAGAAGTAGTGAAAGAAAAATGGGCACT
ATATAAAGAAGTGCGATATGCAATAAGTTGTAATACACGAAAAGGTCATCATAAAAGTTT
TGTAGAACAAAAATTAAAAGCAACTCAAAGAAGAAAATGGTATTAAATTGGAGAGGAGTA
AAAAGTAGATTATATAGTGGAAAACGAAGAATAGAATGGAAGAAATAAAAGAAACTGTTA
AAAAAAAAAANTTAAAAAAAAAAAAAAATTTAAAAAAAAAA----------AAAAAAAAC
GGTAGCTNAATTTAAAGGCGAATTATTAATTGNAAATATAGTAGAGGAATTTGTAAAGGC
TTCCAAAGANCAAGGAGAAGTAGTGAAANAAAAATGGGCACTATATAAANAAGTGCGATA
TGCAATAAGTTGTAATACACGAAAAGGTCATCATAAAAGTTTTGTAGAACAAAAATTAAA
AGCNGACTCAAAGAAGAAAATGGTATTAAATTGGAGAGGAGTAAAAAGTAGATTANATAG
TGNAAACGAAGAATAGGAANGGAAGTAAATAAAAGAAACTGTTAAAAAAAAAAAA
Length of connected seq. 645
Full length Seq ID -
Full length Seq. -
Length of full length seq. -