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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
VSA537
Library VS
(Link to library)
Clone ID VSA537
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14496-1
Original site URL
Representative seq. ID VSA537E
(Link to Original site)
Representative DNA sequence 
>VSA537 (VSA537Q) /CSM/VS/VSA5-B/VSA537Q.Seq.d/
ATCACATATTAAAATGCCAACCAGATTCAGTAAGCATAGAAAATCAAGAGGTGACGTTTG
TGCCGGTTACGGTCGTGTTGGTAAACACAGAAAGCATCCAGGTGGTCGTGGTAATGCTGG
TGGTCTCACTCATCACAGAATTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATT
AGGTATGAGACATTTCCATTTATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGA
AAAGATCTGGACTTTAGTCCCAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGG
TACTGCTCCAGTTGTTGATGTCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTAT
CCTCCCAACTCAACCAATCATCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAA
AATCAAAGCTGTCGGTGGTGCTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATA
AATATAAATAAAAAAAGTAATTAAATTTAAAAAATATAAAAAAAAAAAAAAAA
sequence update 2000. 2.21
Translated Amino Acid sequence 
SHIKMPTRFSKHRKSRGDVCAGYGRVGKHRKHPGGRGNAGGLTHHRINFDKYHPGYFGKL
GMRHFHLLRNQYHCPTVSLEKIWTLVPESVRKSLAAKNDGTAPVVDVTQKGFFKVLGHGI
LPTQPIIVKARYFSKVAEKKIKAVGGACILVA*ifytnq*i*ikkvikfkkykkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
ity*nanqiq*a*kikr*rlcrlrscw*tqkasrwsw*cwwshssqn*l*qipsrlfr*i
ryetfpfikkpiplsnrlirkdldfsprirqkiiscqe*rycssc*chpkrflqsfrsry
ppnstnhrqsslfl*sr*kenqscrwclylsclnilyesininkksn*i*ki*kkkk


Frame B:
SHIKMPTRFSKHRKSRGDVCAGYGRVGKHRKHPGGRGNAGGLTHHRINFDKYHPGYFGKL
GMRHFHLLRNQYHCPTVSLEKIWTLVPESVRKSLAAKNDGTAPVVDVTQKGFFKVLGHGI
LPTQPIIVKARYFSKVAEKKIKAVGGACILVA*ifytnq*i*ikkvikfkkykkkkk


Frame C:
hilkcqpdsvsienqevtfvpvtvvlvntesiqvvvvmlvvsliteltltntiqvisvn*
v*disiy*etntivqpsh*krsgl*sqnpsenh*lprmtvllqllmspkkvsskf*vtvs
sqlnqsssklvislkslkrksklsvvlvs*llkyfirinkyk*kk*lnlknikkkkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ737 (VSJ737Q) /CSM/VS/VSJ7-B/VSJ737Q.Seq.d/                        961   0.0
VSI571 (VSI571Q) /CSM/VS/VSI5-C/VSI571Q.Seq.d/                        961   0.0
VSE523 (VSE523Q) /CSM/VS/VSE5-A/VSE523Q.Seq.d/                        961   0.0
VSA537 (VSA537Q) /CSM/VS/VSA5-B/VSA537Q.Seq.d/                        961   0.0
VHO146 (VHO146Q) /CSM/VH/VHO1-B/VHO146Q.Seq.d/                        961   0.0
VHG250 (VHG250Q) /CSM/VH/VHG2-C/VHG250Q.Seq.d/                        961   0.0
VHE734 (VHE734Q) /CSM/VH/VHE7-B/VHE734Q.Seq.d/                        961   0.0
VFF473 (VFF473Q) /CSM/VF/VFF4-D/VFF473Q.Seq.d/                        961   0.0
VFE287 (VFE287Q) /CSM/VF/VFE2-D/VFE287Q.Seq.d/                        961   0.0
VSH826 (VSH826Q) /CSM/VS/VSH8-B/VSH826Q.Seq.d/                        957   0.0
own update 2003. 1. 8
Homology vs DNA 

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

D50338|D50338.1 Dictyostelium discoideum DNA for ribosomal protein, complete cds.   932   0.0    2
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-26  3
BP014972|BP014972.1 Ciona intestinalis cDNA, clone:ciad63m07, 5' end, single read.    72   5e-25  4
BP010592|BP010592.1 Ciona intestinalis cDNA, clone:ciad74n20, 5' end, single read.    72   2e-24  4
BW126894|BW126894.1 Ciona intestinalis cDNA, clone:rcign012m06, 3' end, single read.    72   2e-24  4
BW094561|BW094561.1 Ciona intestinalis cDNA, clone:rcitb049o03, 3' end, single read.    72   2e-24  4
BW124755|BW124755.1 Ciona intestinalis cDNA, clone:rciad100o10, 3' end, single read.    72   2e-24  4
BM961080|BM961080.1 cihA11A16T Ascidian hemocytes cDNA library Ciona intestinalis cDNA, mRNA sequence.    72   2e-24  4
BP005921|BP005921.1 Ciona intestinalis cDNA, clone:ciad39g13, 5' end, single read.    72   2e-24  4
AV986190|AV986190.1 Ciona intestinalis cDNA, clone:cilv41c03, 5' end, single read.    72   2e-24  4
dna update 2004. 1.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P48160) RecName: Full=60S ribosomal protein L27a;  &D50338_1(D5...   313   2e-84
BT046766_1(BT046766|pid:none) Salmo salar clone ssal-eve-548-138...   226   2e-58
AY961477_1(AY961477|pid:none) Phytophthora infestans clone MY-19...   226   4e-58
AF502247_1(AF502247|pid:none) Epinephelus coioides ribosomal pro...   223   3e-57
AJ843085_1(AJ843085|pid:none) Platichthys flesus mRNA for 60S ri...   223   3e-57
(P18445) RecName: Full=60S ribosomal protein L27a;  &R5RTLA(S130...   222   4e-57
AB374966_1(AB374966|pid:none) Solea senegalensis RPL27a mRNA for...   221   7e-57
(P46776) RecName: Full=60S ribosomal protein L27a;  &(Q5REY2) Re...   221   7e-57
AJ307670_3(AJ307670|pid:none) Mus musculus St5 gene, L27a gene a...   221   7e-57
AB172987_1(AB172987|pid:none) Macaca fascicularis brain cDNA clo...   220   2e-56
protein update 2009. 7.27
PSORT 

 psg: 0.33  gvh: 0.18  alm: 0.42  top: 0.53  tms: 0.00  mit: 0.46  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 

	 60.0 %: cytoplasmic
	 20.0 %: mitochondrial
	 16.0 %: nuclear
	  4.0 %: plasma membrane

>> prediction for VSA537 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 VSA537E
Full length Seq. 
>VSA537E.Seq
ATCACATATTAAAATGCCAACCAGATTCAGTAAGCATAGAAAATCAAGAGGTGACGTTTG
TGCCGGTTACGGTCGTGTTGGTAAACACAGAAAGCATCCAGGTGGTCGTGGTAATGCTGG
TGGTCTCACTCATCACAGAATTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATT
AGGTATGAGACATTTCCATTTATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGA
AAAGATCTGGACTTTAGTCCCAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGG
TACTGCTCCAGTTGTTGATGTCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTAT
CCTCCCAACTCAACCAATCATCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAA
AATCAAAGCTGTCGGTGGTGCTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATA
AATATAAATAAAAAAAGTAATTAAATTTAAAAAATATAAAAAAAAAAAAAAAA
Length of full length seq. 533