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Dicty_cDB
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
VSG253
Library VS
(Link to library)
Clone ID VSG253
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14496-1
Original site URL
Representative seq. ID VSG253P
(Link to Original site)
Representative DNA sequence 
>VSG253 (VSG253Q) /CSM/VS/VSG2-C/VSG253Q.Seq.d/
ACCGNTTCAGTAAGCATAGAAAATCAAGAGGTGACGTTTGTGCCGGTTACGGTCGTGTTG
GTAAACACAGAAAGCATCCAGGTGGTCGTGGTAATGCTGGTGGTCTCACTCATCACAGAA
TTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATTAGGTATGAGACATTTCCATT
TATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGAAAAGATCTGGACTTTAGTCC
CAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGGTACTGCTCCAGTTGTTGATG
TCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTATCCTCCCAACTCAACCAATCA
TCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTGGTG
CTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATAAATATAAATAAAAAAAGTAA
TTAAATTTAAAAAATAAAAAAAAAAXXXXXXXXXXACCAGATTCAGTAAGCATAGAAAAT
CAAGAGGTGACGTTTGTGCCGGTTACGGTCGTGTTGGTAAACACAGAAAGCATCCAGGTG
GTCGTGGTAATGCTGGTGGTCTCACTCATCACAGAATTAACTTTGACAAATACCATCCAG
GTTATTTCGGTAAATTAGGTATGAGACATTTCCATTTATTAAGAAACCAATACCATTGTC
CAACCGTCTCATTAGAAAAGATCTGGACTTTAGTCCCAGAATCCGTCAGAAAATCATTAG
CTGCCAAGAATGACGGTACTGCTCCAGTTGTTGATGTCACCCAAAAAGGTTTCTTCAAAG
TTTTAGGTCACGGTATCCTCCCAACTCAACCAATCATCGTCAAAGCTCGTTATTTCTCTA
AAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTGGTGCTTGTATCTTAGTGCTTAAAATTT
ATACGAATCAATAAATAAAAAAAAAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
txsvsienqevtfvpvtvvlvntesiqvvvvmlvvsliteltltntiqvisvn*v*disi
y*etntivqpsh*krsgl*sqnpsenh*lprmtvllqllmspkkvsskf*vtvssqlnqs
ssklvislkslkrksklsvvlvs*llkyfirinkyk*kk*LNLKNKKK---

---TRFSKHRKSRGDVCAGYGRVGKHRKHPGGRGNAGGLTHHRINFDKYHPGYFGKLGMR
HFHLLRNQYHCPTVSLEKIWTLVPESVRKSLAAKNDGTAPVVDVTQKGFFKVLGHGILPT
QPIIVKARYFSKVAEKKIKAVGGACILVLKIYTNQ*ikkk
Translated Amino Acid sequence (All Frames) 
Frame A:
txsvsienqevtfvpvtvvlvntesiqvvvvmlvvsliteltltntiqvisvn*v*disi
y*etntivqpsh*krsgl*sqnpsenh*lprmtvllqllmspkkvsskf*vtvssqlnqs
ssklvislkslkrksklsvvlvs*llkyfirinkyk*kk*LNLKNKKK---

---TRFSKHRKSRGDVCAGYGRVGKHRKHPGGRGNAGGLTHHRINFDKYHPGYFGKLGMR
HFHLLRNQYHCPTVSLEKIWTLVPESVRKSLAAKNDGTAPVVDVTQKGFFKVLGHGILPT
QPIIVKARYFSKVAEKKIKAVGGACILVLKIYTNQ*ikkk

Frame B:
pxq*a*kikr*rlcrlrscw*tqkasrwsw*cwwshssqn*l*qipsrlfr*iryetfpf
ikkpiplsnrlirkdldfsprirqkiiscqe*rycssc*chpkrflqsfrsryppnstnh
rqsslfl*sr*kenqscrwclylsclnilyesininkksn*i*kikkk---

---pdsvsienqevtfvpvtvvlvntesiqvvvvmlvvsliteltltntiqvisvn*v*d
isiy*etntivqpsh*krsgl*sqnpsenh*lprmtvllqllmspkkvsskf*vtvssql
nqsssklvislkslkrksklsvvlvs*clkfirink*kk

Frame C:
rfskhrksrgdvcagygrvgkhrkhpggrgnagglthhrinfdkyhpgyfgklgmrhfhl
lrnqyhcptvslekiwtlvpesvrkslaakndgtapvvdvtqkgffkvlghgilptqpii
vkaryfskvaekkikavggacilva*ifytnq*i*ikkvikfkk*kk---

---qiq*a*kikr*rlcrlrscw*tqkasrwsw*cwwshssqn*l*qipsrlfr*iryet
fpfikkpiplsnrlirkdldfsprirqkiiscqe*rycssc*chpkrflqsfrsryppns
tnhrqsslfl*sr*kenqscrwclylsa*nlyesinkkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSG253 (VSG253Q) /CSM/VS/VSG2-C/VSG253Q.Seq.d/                        914   0.0
VSF558 (VSF558Q) /CSM/VS/VSF5-C/VSF558Q.Seq.d/                        902   0.0
VSJ754 (VSJ754Q) /CSM/VS/VSJ7-C/VSJ754Q.Seq.d/                        898   0.0
VSJ737 (VSJ737Q) /CSM/VS/VSJ7-B/VSJ737Q.Seq.d/                        898   0.0
VSJ618 (VSJ618Q) /CSM/VS/VSJ6-A/VSJ618Q.Seq.d/                        898   0.0
VSJ605 (VSJ605Q) /CSM/VS/VSJ6-A/VSJ605Q.Seq.d/                        898   0.0
VSJ421 (VSJ421Q) /CSM/VS/VSJ4-A/VSJ421Q.Seq.d/                        898   0.0
VSJ418 (VSJ418Q) /CSM/VS/VSJ4-A/VSJ418Q.Seq.d/                        898   0.0
VSI571 (VSI571Q) /CSM/VS/VSI5-C/VSI571Q.Seq.d/                        898   0.0
VSI537 (VSI537Q) /CSM/VS/VSI5-B/VSI537Q.Seq.d/                        898   0.0
own update 2004.12.25
Homology vs DNA 

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

D50338|D50338.1 Dictyostelium discoideum DNA for ribosomal protein, complete cds.   898  0.0  3
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  7e-26  3
BP014972|BP014972.1 Ciona intestinalis cDNA, clone:ciad63m07, 5' end, single read.    72  3e-24  4
BP010592|BP010592.1 Ciona intestinalis cDNA, clone:ciad74n20, 5' end, single read.    72  9e-24  4
BW126894|BW126894.1 Ciona intestinalis cDNA, clone:rcign012m06, 3' end, single read.    72  1e-23  4
BW094561|BW094561.1 Ciona intestinalis cDNA, clone:rcitb049o03, 3' end, single read.    72  1e-23  4
BW124755|BW124755.1 Ciona intestinalis cDNA, clone:rciad100o10, 3' end, single read.    72  1e-23  4
BM961080|BM961080.1 cihA11A16T Ascidian hemocytes cDNA library Ciona intestinalis cDNA, mRNA sequence.    72  1e-23  4
BP005921|BP005921.1 Ciona intestinalis cDNA, clone:ciad39g13, 5' end, single read.    72  1e-23  4
AV986190|AV986190.1 Ciona intestinalis cDNA, clone:cilv41c03, 5' end, single read.    72  1e-23  4
dna update 2003. 8.24
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P48160) RecName: Full=60S ribosomal protein L27a;  &D50338_1(D5...   306   5e-82
AY961477_1(AY961477|pid:none) Phytophthora infestans clone MY-19...   221   4e-56
BT046766_1(BT046766|pid:none) Salmo salar clone ssal-eve-548-138...   220   5e-56
AJ312339_1(AJ312339|pid:none) Oncorhynchus mykiss partial mRNA f...   218   2e-55
(P18445) RecName: Full=60S ribosomal protein L27a;  &R5RTLA(S130...   217   4e-55
(P46776) RecName: Full=60S ribosomal protein L27a;  &(Q5REY2) Re...   216   7e-55
AF502247_1(AF502247|pid:none) Epinephelus coioides ribosomal pro...   216   7e-55
AJ843085_1(AJ843085|pid:none) Platichthys flesus mRNA for 60S ri...   216   7e-55
AJ307670_3(AJ307670|pid:none) Mus musculus St5 gene, L27a gene a...   216   7e-55
AB374966_1(AB374966|pid:none) Solea senegalensis RPL27a mRNA for...   215   2e-54
protein update 2009. 3.22
PSORT 

 psg: 0.34  gvh: 0.15  alm: 0.40  top: 0.53  tms: 0.00  mit: 0.38  mip: 0.12
 nuc: 0.05  erl: 0.00  erm: 0.00  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 

	 64.0 %: cytoplasmic
	 16.0 %: mitochondrial
	 16.0 %: nuclear
	  4.0 %: plasma membrane

>> prediction for VSG253 is cyt
5' end seq. ID VSG253F
5' end seq. 
>VSG253F.Seq
ACCGNTTCAGTAAGCATAGAAAATCAAGAGGTGACGTTTGTGCCGGTTACGGTCGTGTTG
GTAAACACAGAAAGCATCCAGGTGGTCGTGGTAATGCTGGTGGTCTCACTCATCACAGAA
TTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATTAGGTATGAGACATTTCCATT
TATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGAAAAGATCTGGACTTTAGTCC
CAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGGTACTGCTCCAGTTGTTGATG
TCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTATCCTCCCAACTCAACCAATCA
TCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTGGTG
CTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATAAATATAAATAAAAAAAGTAA
TTAAATTTAAAAAATAAAAAAAAAA----------
Length of 5' end seq. 505
3' end seq. ID VSG253Z
3' end seq. 
>VSG253Z.Seq
----------ACCAGATTCAGTAAGCATAGAAAATCAAGAGGTGACGTTTGTGCCGGTTA
CGGTCGTGTTGGTAAACACAGAAAGCATCCAGGTGGTCGTGGTAATGCTGGTGGTCTCAC
TCATCACAGAATTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATTAGGTATGAG
ACATTTCCATTTATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGAAAAGATCTG
GACTTTAGTCCCAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGGTACTGCTCC
AGTTGTTGATGTCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTATCCTCCCAAC
TCAACCAATCATCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAAAATCAAAGC
TGTCGGTGGTGCTTGTATCTTAGTGCTTAAAATTTATACGAATCAATAAATAAAAAAAAA
A
Length of 3' end seq. 471
Connected seq. ID VSG253P
Connected seq. 
>VSG253P.Seq
ACCGNTTCAGTAAGCATAGAAAATCAAGAGGTGACGTTTGTGCCGGTTACGGTCGTGTTG
GTAAACACAGAAAGCATCCAGGTGGTCGTGGTAATGCTGGTGGTCTCACTCATCACAGAA
TTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATTAGGTATGAGACATTTCCATT
TATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGAAAAGATCTGGACTTTAGTCC
CAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGGTACTGCTCCAGTTGTTGATG
TCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTATCCTCCCAACTCAACCAATCA
TCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTGGTG
CTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATAAATATAAATAAAAAAAGTAA
TTAAATTTAAAAAATAAAAAAAAAA----------ACCAGATTCAGTAAGCATAGAAAAT
CAAGAGGTGACGTTTGTGCCGGTTACGGTCGTGTTGGTAAACACAGAAAGCATCCAGGTG
GTCGTGGTAATGCTGGTGGTCTCACTCATCACAGAATTAACTTTGACAAATACCATCCAG
GTTATTTCGGTAAATTAGGTATGAGACATTTCCATTTATTAAGAAACCAATACCATTGTC
CAACCGTCTCATTAGAAAAGATCTGGACTTTAGTCCCAGAATCCGTCAGAAAATCATTAG
CTGCCAAGAATGACGGTACTGCTCCAGTTGTTGATGTCACCCAAAAAGGTTTCTTCAAAG
TTTTAGGTCACGGTATCCTCCCAACTCAACCAATCATCGTCAAAGCTCGTTATTTCTCTA
AAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTGGTGCTTGTATCTTAGTGCTTAAAATTT
ATACGAATCAATAAATAAAAAAAAAA
Length of connected seq. 976
Full length Seq ID -
Full length Seq. -
Length of full length seq. -