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
VSC345
Library VS
(Link to library)
Clone ID VSC345
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14496-1
Original site URL
Representative seq. ID VSC345E
(Link to Original site)
Representative DNA sequence 
>VSC345 (VSC345Q) /CSM/VS/VSC3-B/VSC345Q.Seq.d/
ACCAGATTCNGTAAGCATAGAAAATCAAGAGGTGACGTTTGTGCCGGTTACGGTCGTGTT
GGTAAACACAGAAAGCATCCAGGTGGTCGTGATAATGCTGGTGGTCTCACTCATCACAGA
ATTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATTAGGTATGAGACATTTCCAT
TTATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGAAAAGATCTGGACTTTAGTC
CCAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGGTACTGCTCCAGTTGTTGAT
GTCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTATCCTCCCAACTCAACCAATC
ATCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTGGT
GCTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATAAATATAAATAAAAAAAGTA
ATTAAATTTAAAAAATATAAAA
sequence update 2000.10. 5
Translated Amino Acid sequence 
TRFXKHRKSRGDVCAGYGRVGKHRKHPGGRDNAGGLTHHRINFDKYHPGYFGKLGMRHFH
LLRNQYHCPTVSLEKIWTLVPESVRKSLAAKNDGTAPVVDVTQKGFFKVLGHGILPTQPI
IVKARYFSKVAEKKIKAVGGACILVA*ifytnq*i*ikkvikfkkyk
Translated Amino Acid sequence (All Frames) 
Frame A:
TRFXKHRKSRGDVCAGYGRVGKHRKHPGGRDNAGGLTHHRINFDKYHPGYFGKLGMRHFH
LLRNQYHCPTVSLEKIWTLVPESVRKSLAAKNDGTAPVVDVTQKGFFKVLGHGILPTQPI
IVKARYFSKVAEKKIKAVGGACILVA*ifytnq*i*ikkvikfkkyk


Frame B:
pdsvsienqevtfvpvtvvlvntesiqvvvimlvvsliteltltntiqvisvn*v*disi
y*etntivqpsh*krsgl*sqnpsenh*lprmtvllqllmspkkvsskf*vtvssqlnqs
ssklvislkslkrksklsvvlvs*llkyfirinkyk*kk*lnlknik


Frame C:
qix*a*kikr*rlcrlrscw*tqkasrws**cwwshssqn*l*qipsrlfr*iryetfpf
ikkpiplsnrlirkdldfsprirqkiiscqe*rycssc*chpkrflqsfrsryppnstnh
rqsslfl*sr*kenqscrwclylsclnilyesininkksn*i*ki*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSC345 (VSC345Q) /CSM/VS/VSC3-B/VSC345Q.Seq.d/                        900   0.0
VSJ737 (VSJ737Q) /CSM/VS/VSJ7-B/VSJ737Q.Seq.d/                        892   0.0
VSJ618 (VSJ618Q) /CSM/VS/VSJ6-A/VSJ618Q.Seq.d/                        892   0.0
VSJ605 (VSJ605Q) /CSM/VS/VSJ6-A/VSJ605Q.Seq.d/                        892   0.0
VSJ421 (VSJ421Q) /CSM/VS/VSJ4-A/VSJ421Q.Seq.d/                        892   0.0
VSI571 (VSI571Q) /CSM/VS/VSI5-C/VSI571Q.Seq.d/                        892   0.0
VSI537 (VSI537Q) /CSM/VS/VSI5-B/VSI537Q.Seq.d/                        892   0.0
VSH826 (VSH826Q) /CSM/VS/VSH8-B/VSH826Q.Seq.d/                        892   0.0
VSH782 (VSH782Q) /CSM/VS/VSH7-D/VSH782Q.Seq.d/                        892   0.0
VSG825 (VSG825Q) /CSM/VS/VSG8-B/VSG825Q.Seq.d/                        892   0.0
own update 2001.11.12
Homology vs DNA 

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

D50338|D50338.1 Dictyostelium discoideum DNA for ribosomal protein, complete cds.   892  0.0  1
BI863538|BI863538.1 kx45d11.y1 Parastrongyloides trichosuri FL pAMP1 v1 Chiapelli McCarter Parastrongyloides trichosuri cDNA 5' similar to SW:RL2A_OSCBR O01358 60S RIBOSOMAL PROTEIN L27A ;, mRNA sequence.    82  2e-24  3
BG661858|BG661858.1 kx07c07.y1 Parastrongyloides trichosuri IL SL1 TOPO v2 Parastrongyloides trichosuri cDNA similar to SW:RL2A_OSCBR O01358 60S RIBOSOMAL PROTEIN L27A ;, mRNA sequence.    82  5e-21  3
BE028930|BE028930.1 kp22d12.y1 TBN95TM-SSFH Strongyloides stercoralis cDNA 5' similar to SW:RL2A_OSCBR O01358 60S RIBOSOMAL PROTEIN L27A ;, mRNA sequence.    56  1e-19  4
BF015311|BF015311.1 kq62e03.y1 TBN95TM-SSR Strongyloides stercoralis cDNA 5' similar to SW:RL2A_OSCBR O01358 60S RIBOSOMAL PROTEIN L27A ;, mRNA sequence.    56  1e-19  4
BG227917|BG227917.1 kq17b08.y1 TBN95TM-SSR Strongyloides stercoralis cDNA 5' similar to SW:RL2A_OSCBR O01358 60S RIBOSOMAL PROTEIN L27A ;, mRNA sequence.    56  1e-19  4
BG227095|BG227095.1 kp96h08.y1 TBN95TM-SSR Strongyloides stercoralis cDNA 5' similar to SW:RL2A_OSCBR O01358 60S RIBOSOMAL PROTEIN L27A ;, mRNA sequence.    56  1e-19  4
BG227126|BG227126.1 kp97d02.y1 TBN95TM-SSR Strongyloides stercoralis cDNA 5' similar to SW:RL2A_OSCBR O01358 60S RIBOSOMAL PROTEIN L27A ;, mRNA sequence.    56  2e-19  4
BG226274|BG226274.1 kq19f01.y1 TBN95TM-SSR Strongyloides stercoralis cDNA 5' similar to SW:RL2A_OSCBR O01358 60S RIBOSOMAL PROTEIN L27A ;, mRNA sequence.    56  5e-18  4
BG227807|BG227807.1 kq14h10.y1 TBN95TM-SSR Strongyloides stercoralis cDNA 5' similar to SW:RL2A_OSCBR O01358 60S RIBOSOMAL PROTEIN L27A ;, mRNA sequence.    56  6e-18  4
dna update 2003. 9.13
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P48160) RecName: Full=60S ribosomal protein L27a;  &D50338_1(D5...   303   1e-81
BT046766_1(BT046766|pid:none) Salmo salar clone ssal-eve-548-138...   218   5e-56
AY961477_1(AY961477|pid:none) Phytophthora infestans clone MY-19...   216   2e-55
AJ312339_1(AJ312339|pid:none) Oncorhynchus mykiss partial mRNA f...   215   4e-55
(P18445) RecName: Full=60S ribosomal protein L27a;  &R5RTLA(S130...   215   5e-55
AF502247_1(AF502247|pid:none) Epinephelus coioides ribosomal pro...   214   7e-55
AJ843085_1(AJ843085|pid:none) Platichthys flesus mRNA for 60S ri...   214   7e-55
(P46776) RecName: Full=60S ribosomal protein L27a;  &(Q5REY2) Re...   214   9e-55
AJ307670_3(AJ307670|pid:none) Mus musculus St5 gene, L27a gene a...   214   9e-55
AB374966_1(AB374966|pid:none) Solea senegalensis RPL27a mRNA for...   213   2e-54
protein update 2009. 7.29
PSORT 

 psg: 0.75  gvh: 0.18  alm: 0.42  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.11
 nuc: 0.05  erl: 0.00  erm: 0.20  pox: 0.00  px2: 0.50  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: 0.50  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
	 20.0 %: mitochondrial
	 20.0 %: nuclear
	  4.0 %: cytoskeletal

>> prediction for VSC345 is cyt
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID -
3' end seq. -
Length of 3' end seq. -
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID VSC345E
Full length Seq. 
>VSC345E.Seq
ACCAGATTCNGTAAGCATAGAAAATCAAGAGGTGACGTTTGTGCCGGTTACGGTCGTGTT
GGTAAACACAGAAAGCATCCAGGTGGTCGTGATAATGCTGGTGGTCTCACTCATCACAGA
ATTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATTAGGTATGAGACATTTCCAT
TTATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGAAAAGATCTGGACTTTAGTC
CCAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGGTACTGCTCCAGTTGTTGAT
GTCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTATCCTCCCAACTCAACCAATC
ATCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTGGT
GCTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATAAATATAAATAAAAAAAGTA
ATTAAATTTAAAAAATATAAAA
Length of full length seq. 502