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
VSG387
Library VS
(Link to library)
Clone ID VSG387
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig -
Original site URL
Representative seq. ID VSG387P
(Link to Original site)
Representative DNA sequence 
>VSG387 (VSG387Q) /CSM/VS/VSG3-D/VSG387Q.Seq.d/
AAAAAAAAAACACAGAATGGGTAAAGTACATGGTGGTTTGAATCGTGCTGGTAAAGTCAG
AAACGCTACTCCAAAGAAAGATAAGGAAGAAAAAAGAAAACCAAAGGTTGGTCGTGCTAA
AAAGAGAATGATCTTCAACAGACGTAACGTCGCCGCCGTCGCTGGTTTCGGTAAAAAGAA
GGGTTACAACACTCAAAACGTCCCAACCGTTGCTTAAATTTATTAATATACAATTTATAA
TTAAAATAATAAATTTTTGAAGAAATATTTAACTTTTTTTTTAAAAATAAAATAAATATT
TTCTCCTCCTTTTAAAAAAAAAAXXXXXXXXXXAAAAAAAAAACACAGAATGGGTAAAGT
ACATGGTGGTTTGAATCGTGCTGGTAAAGTCAGAAACGCTACTCCAAAGAAAGATAAGGA
AGAAAAAAGAAAACCAAAGGTTGGTCGTGCTAAAAAGAGAATGATCTTCAACAGACGTAA
CGTCGCCGCCGTCGCTGGTTTCGGTAAAAAGAAGGGTTACAACACTCAAAACGTCCCAAC
CGTTGCTTAAATTTATTAATATACAATTTATAATTAAAATAATAAATTTTTGAAGAAATA
TTTAACTTTTTTTTAAAAATA
sequence update 2001. 3.22
Translated Amino Acid sequence 
kkntewvkymvv*ivlvksetllqrkirkkkenqrlvvlkre*sstdvtsppslvsvkrr
vttlktsqpllkfiniqfiikiinf*rni*lff*k*NKYFLLLLKKK---

---KKKHRMGKVHGGLNRAGKVRNATPKKDKEEKRKPKVGRAKKRMIFNRRNVAAVAGFG
KKKGYNTQNVPTVA*iy*ytiyn*nnkflkkyltff*k
Translated Amino Acid sequence (All Frames) 
Frame A:
kkktqng*stwwfescw*sqkrysker*grkkktkgwsc*kendlqqt*rrrrrwfr*ke
glqhskrpnrclnlliynl*lk**ifeeifnfffknkinifssf*kk---

---kkktqng*stwwfescw*sqkrysker*grkkktkgwsc*kendlqqt*rrrrrwfr
*keglqhskrpnrclnlliynl*lk**ifeeifnfflki

Frame B:
kkkhrmgkvhgglnragkvrnatpkkdkeekrkpkvgrakkrmifnrrnvaavagfgkkk
gyntqnvptva*iy*ytiyn*nnkflkkyltfflkik*ifsppfkkk---

---KKKHRMGKVHGGLNRAGKVRNATPKKDKEEKRKPKVGRAKKRMIFNRRNVAAVAGFG
KKKGYNTQNVPTVA*iy*ytiyn*nnkflkkyltff*k

Frame C:
kkntewvkymvv*ivlvksetllqrkirkkkenqrlvvlkre*sstdvtsppslvsvkrr
vttlktsqpllkfiniqfiikiinf*rni*lff*k*NKYFLLLLKKK---

---kkntewvkymvv*ivlvksetllqrkirkkkenqrlvvlkre*sstdvtsppslvsv
krrvttlktsqpllkfiniqfiikiinf*rni*lffkn
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSK394 (VSK394Q) /CSM/VS/VSK3-D/VSK394Q.Seq.d/                        543   e-153
VSK370 (VSK370Q) /CSM/VS/VSK3-C/VSK370Q.Seq.d/                        543   e-153
VSJ657 (VSJ657Q) /CSM/VS/VSJ6-C/VSJ657Q.Seq.d/                        543   e-153
VSI737 (VSI737Q) /CSM/VS/VSI7-B/VSI737Q.Seq.d/                        543   e-153
VSI616 (VSI616Q) /CSM/VS/VSI6-A/VSI616Q.Seq.d/                        543   e-153
VSI318 (VSI318Q) /CSM/VS/VSI3-A/VSI318Q.Seq.d/                        543   e-153
VSI311 (VSI311Q) /CSM/VS/VSI3-A/VSI311Q.Seq.d/                        543   e-153
VSI129 (VSI129Q) /CSM/VS/VSI1-B/VSI129Q.Seq.d/                        543   e-153
VSH360 (VSH360Q) /CSM/VS/VSH3-C/VSH360Q.Seq.d/                        535   e-151
VSK339 (VSK339Q) /CSM/VS/VSK3-B/VSK339Q.Seq.d/                        533   e-150
own update 2004.12.25
Homology vs DNA 

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

AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.   504  e-142  7
AE014017|AE014017.1 Buchnera aphidicola str. Bp (Baizongia pistaciae), section 2 of 2 of the complete genome.    42  5e-05  8
AC116919|AC116919.2 Dictyostelium discoideum chromosome 2 map complement(6245035-6206343) strain AX4, complete sequence.    38  6e-05  4
AE014849|AE014849.1 Plasmodium falciparum 3D7 chromosome 12, section 6 of 9 of the complete sequence.    40  2e-04  10
AL008970|AL008970.3 Plasmodium falciparum MAL3P4.                 36  2e-04  8
AL031745|AL031745.8 Plasmodium falciparum DNA from MAL1P2.        38  3e-04  8
AE014830|AE014830.1 Plasmodium falciparum 3D7 chromosome 10 section 2 of 7 of the complete sequence.    34  4e-04  9
AL929355|AL929355.1 Plasmodium falciparum strain 3D7, chromosome 9; segment 1/5.    34  9e-04  10
AB063521|AB063521.2 Wigglesworthia brevipalpis DNA, complete genome, section 1/2.    36  0.001  11
AL035476|AL035476.7 Plasmodium falciparum MAL4P3.                 40  0.001  9
dna update 2003. 8.25
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q556Y1) RecName: Full=40S ribosomal protein S30;  &AC116984_159...   106   4e-22
AC138087_6(AC138087|pid:none) Medicago truncatula clone mth2-22p...    62   2e-08
EU975114_1(EU975114|pid:none) Zea mays clone 469296 unknown mRNA.      62   2e-08
AP002854_6(AP002854|pid:none) Oryza sativa Japonica Group genomi...    62   2e-08
EU955358_1(EU955358|pid:none) Zea mays clone 1529338 40S ribosom...    61   2e-08
EU247175_1(EU247175|pid:none) Lycosa singoriensis clone LSsin967...    58   2e-07
AK026639_1(AK026639|pid:none) Homo sapiens cDNA: FLJ22986 fis, c...    57   3e-07
CR858470_1(CR858470|pid:none) Pongo abelii mRNA; cDNA DKFZp468H2...    57   3e-07
EU124952_1(EU124952|pid:none) Arenicola marina ribosomal protein...    57   3e-07
BC077676_1(BC077676|pid:none) Xenopus tropicalis Finkel-Biskis-R...    57   3e-07
protein update 2009. 3.23
PSORT 

 psg: 0.28  gvh: 0.24  alm: 0.59  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.06
 nuc: 0.60  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 

	 76.0 %: nuclear
	  8.0 %: cytoskeletal
	  8.0 %: cytoplasmic
	  4.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for VSG387 is nuc
5' end seq. ID VSG387F
5' end seq. 
>VSG387F.Seq
AAAAAAAAAACACAGAATGGGTAAAGTACATGGTGGTTTGAATCGTGCTGGTAAAGTCAG
AAACGCTACTCCAAAGAAAGATAAGGAAGAAAAAAGAAAACCAAAGGTTGGTCGTGCTAA
AAAGAGAATGATCTTCAACAGACGTAACGTCGCCGCCGTCGCTGGTTTCGGTAAAAAGAA
GGGTTACAACACTCAAAACGTCCCAACCGTTGCTTAAATTTATTAATATACAATTTATAA
TTAAAATAATAAATTTTTGAAGAAATATTTAACTTTTTTTTTAAAAATAAAATAAATATT
TTCTCCTCCTTTTAAAAAAAAAA----------
Length of 5' end seq. 323
3' end seq. ID VSG387Z
3' end seq. 
>VSG387Z.Seq
----------AAAAAAAAAACACAGAATGGGTAAAGTACATGGTGGTTTGAATCGTGCTG
GTAAAGTCAGAAACGCTACTCCAAAGAAAGATAAGGAAGAAAAAAGAAAACCAAAGGTTG
GTCGTGCTAAAAAGAGAATGATCTTCAACAGACGTAACGTCGCCGCCGTCGCTGGTTTCG
GTAAAAAGAAGGGTTACAACACTCAAAACGTCCCAACCGTTGCTTAAATTTATTAATATA
CAATTTATAATTAAAATAATAAATTTTTGAAGAAATATTTAACTTTTTTTTAAAAATA
Length of 3' end seq. 288
Connected seq. ID VSG387P
Connected seq. 
>VSG387P.Seq
AAAAAAAAAACACAGAATGGGTAAAGTACATGGTGGTTTGAATCGTGCTGGTAAAGTCAG
AAACGCTACTCCAAAGAAAGATAAGGAAGAAAAAAGAAAACCAAAGGTTGGTCGTGCTAA
AAAGAGAATGATCTTCAACAGACGTAACGTCGCCGCCGTCGCTGGTTTCGGTAAAAAGAA
GGGTTACAACACTCAAAACGTCCCAACCGTTGCTTAAATTTATTAATATACAATTTATAA
TTAAAATAATAAATTTTTGAAGAAATATTTAACTTTTTTTTTAAAAATAAAATAAATATT
TTCTCCTCCTTTTAAAAAAAAAA----------AAAAAAAAAACACAGAATGGGTAAAGT
ACATGGTGGTTTGAATCGTGCTGGTAAAGTCAGAAACGCTACTCCAAAGAAAGATAAGGA
AGAAAAAAGAAAACCAAAGGTTGGTCGTGCTAAAAAGAGAATGATCTTCAACAGACGTAA
CGTCGCCGCCGTCGCTGGTTTCGGTAAAAAGAAGGGTTACAACACTCAAAACGTCCCAAC
CGTTGCTTAAATTTATTAATATACAATTTATAATTAAAATAATAAATTTTTGAAGAAATA
TTTAACTTTTTTTTAAAAATA
Length of connected seq. 611
Full length Seq ID -
Full length Seq. -
Length of full length seq. -