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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
VSD131
Library VS
(Link to library)
Clone ID VSD131
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14496-1
Original site URL
Representative seq. ID VSD131P
(Link to Original site)
Representative DNA sequence 
>VSD131 (VSD131Q) /CSM/VS/VSD1-B/VSD131Q.Seq.d/
CAACCAGATTCAGTAAGCATAGAAAATCAAGAGGTGACGTTTGTGCCGGTTACGGTCGTG
TTGGTAAACACAGAAAGCATCCAGGTGGTCGTGGTAATGCTGGTGGTCTCACTCATCACA
GAATTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATTAGGTATGAGACATTTCC
ATTTATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGAAAAGATCTGGACTTTAG
TCCCAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGGTACTGCTCCAGTTGTTG
ATGTCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTATCCTCCCAACTCAACCAA
TCATCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTG
GTGCTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATAAATATAAATAAAAAAAG
TAATTAAATTTAAAAAATTNNNNANAAAAXXXXXXXXXXCAACCAGATTCAGTAAGCATA
GAAAATCAAGAGGTGACGTTTGTGCCGGTTACGGTCGTGTTGGTAAACACAGAAAGCATC
CAGGTGGTCGTGGTAATGCTGGTGGTCTCACTCATCACAGAATTAACTTTGACAAATACC
ATCCAGGTTATTTCGGTAAATTAGGTATGAGACATTTCCATTTATTAAGAAACCAATACC
ATTGTCCAACCGTCTCATTAGAAAAGATCTGGACTTTAGTCCCAGAATCCGTCAGAAAAT
CATTAGCTGCCAAGAATGACGGTACTGCTCCAGTTGTTGATGTCACCCAAAAAGGTTTCT
TCAAAGTTTTAGGTCACGGTATCCTCCCAACTCAACCAATCATCGTCAAAGCTCGTTATT
TCTCTAAAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTGGTGCTTGTATCTTAGTTGCTT
AAATATTTTATACGAATCAATAAATATAAATAAAAAAAGAATTAAATTAAAAAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
trfskhrksrgdvcagygrvgkhrkhpggrgnagglthhrinfdkyhpgyfgklgmrhfh
llrnqyhcptvslekiwtlvpesvrkslaakndgtapvvdvtqkgffkvlghgilptqpi
ivkaryfskvaekkikavggacilva*ifytnq*i*IKKVIKFKKXXXK---

---TRFSKHRKSRGDVCAGYGRVGKHRKHPGGRGNAGGLTHHRINFDKYHPGYFGKLGMR
HFHLLRNQYHCPTVSLEKIWTLVPESVRKSLAAKNDGTAPVVDVTQKGFFKVLGHGILPT
QPIIVKARYFSKVAEKKIKAVGGACILVA*ifytnq*i*ikkeln*k
Translated Amino Acid sequence (All Frames) 
Frame A:
qpdsvsienqevtfvpvtvvlvntesiqvvvvmlvvsliteltltntiqvisvn*v*dis
iy*etntivqpsh*krsgl*sqnpsenh*lprmtvllqllmspkkvsskf*vtvssqlnq
sssklvislkslkrksklsvvlvs*llkyfirinkyk*kk*lnlknxxx---

---qpdsvsienqevtfvpvtvvlvntesiqvvvvmlvvsliteltltntiqvisvn*v*
disiy*etntivqpsh*krsgl*sqnpsenh*lprmtvllqllmspkkvsskf*vtvssq
lnqsssklvislkslkrksklsvvlvs*llkyfirinkyk*kkn*ikk

Frame B:
nqiq*a*kikr*rlcrlrscw*tqkasrwsw*cwwshssqn*l*qipsrlfr*iryetfp
fikkpiplsnrlirkdldfsprirqkiiscqe*rycssc*chpkrflqsfrsryppnstn
hrqsslfl*sr*kenqscrwclylsclnilyesininkksn*i*kixxk---

---nqiq*a*kikr*rlcrlrscw*tqkasrwsw*cwwshssqn*l*qipsrlfr*irye
tfpfikkpiplsnrlirkdldfsprirqkiiscqe*rycssc*chpkrflqsfrsryppn
stnhrqsslfl*sr*kenqscrwclylsclnilyesininkkriklk

Frame C:
trfskhrksrgdvcagygrvgkhrkhpggrgnagglthhrinfdkyhpgyfgklgmrhfh
llrnqyhcptvslekiwtlvpesvrkslaakndgtapvvdvtqkgffkvlghgilptqpi
ivkaryfskvaekkikavggacilva*ifytnq*i*IKKVIKFKKXXXK---

---TRFSKHRKSRGDVCAGYGRVGKHRKHPGGRGNAGGLTHHRINFDKYHPGYFGKLGMR
HFHLLRNQYHCPTVSLEKIWTLVPESVRKSLAAKNDGTAPVVDVTQKGFFKVLGHGILPT
QPIIVKARYFSKVAEKKIKAVGGACILVA*ifytnq*i*ikkeln*k
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ737 (VSJ737Q) /CSM/VS/VSJ7-B/VSJ737Q.Seq.d/                        910   0.0
VSJ618 (VSJ618Q) /CSM/VS/VSJ6-A/VSJ618Q.Seq.d/                        910   0.0
VSJ421 (VSJ421Q) /CSM/VS/VSJ4-A/VSJ421Q.Seq.d/                        910   0.0
VSI571 (VSI571Q) /CSM/VS/VSI5-C/VSI571Q.Seq.d/                        910   0.0
VSI537 (VSI537Q) /CSM/VS/VSI5-B/VSI537Q.Seq.d/                        910   0.0
VSH826 (VSH826Q) /CSM/VS/VSH8-B/VSH826Q.Seq.d/                        910   0.0
VSH782 (VSH782Q) /CSM/VS/VSH7-D/VSH782Q.Seq.d/                        910   0.0
VSG825 (VSG825Q) /CSM/VS/VSG8-B/VSG825Q.Seq.d/                        910   0.0
VSG689 (VSG689Q) /CSM/VS/VSG6-D/VSG689Q.Seq.d/                        910   0.0
VSG638 (VSG638Q) /CSM/VS/VSG6-B/VSG638Q.Seq.d/                        910   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.   910  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  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  1e-23  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. 8.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P48160) RecName: Full=60S ribosomal protein L27a;  &D50338_1(D5...   308   2e-82
BT046766_1(BT046766|pid:none) Salmo salar clone ssal-eve-548-138...   222   2e-56
AY961477_1(AY961477|pid:none) Phytophthora infestans clone MY-19...   221   3e-56
AJ312339_1(AJ312339|pid:none) Oncorhynchus mykiss partial mRNA f...   218   2e-55
AF502247_1(AF502247|pid:none) Epinephelus coioides ribosomal pro...   218   3e-55
AJ843085_1(AJ843085|pid:none) Platichthys flesus mRNA for 60S ri...   218   3e-55
(P18445) RecName: Full=60S ribosomal protein L27a;  &R5RTLA(S130...   218   3e-55
AB374966_1(AB374966|pid:none) Solea senegalensis RPL27a mRNA for...   217   6e-55
(P46776) RecName: Full=60S ribosomal protein L27a;  &(Q5REY2) Re...   217   6e-55
AJ307670_3(AJ307670|pid:none) Mus musculus St5 gene, L27a gene a...   217   6e-55
protein update 2009. 7.29
PSORT 

 psg: 0.59  gvh: 0.20  alm: 0.42  top: 0.53  tms: 0.00  mit: 0.45  mip: 0.13
 nuc: 0.23  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 

	 52.0 %: cytoplasmic
	 28.0 %: nuclear
	 16.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for VSD131 is cyt
5' end seq. ID VSD131F
5' end seq. 
>VSD131F.Seq
CAACCAGATTCAGTAAGCATAGAAAATCAAGAGGTGACGTTTGTGCCGGTTACGGTCGTG
TTGGTAAACACAGAAAGCATCCAGGTGGTCGTGGTAATGCTGGTGGTCTCACTCATCACA
GAATTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATTAGGTATGAGACATTTCC
ATTTATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGAAAAGATCTGGACTTTAG
TCCCAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGGTACTGCTCCAGTTGTTG
ATGTCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTATCCTCCCAACTCAACCAA
TCATCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTG
GTGCTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATAAATATAAATAAAAAAAG
TAATTAAATTTAAAAAATTNNNNANAAAA----------
Length of 5' end seq. 509
3' end seq. ID VSD131Z
3' end seq. 
>VSD131Z.Seq
----------CAACCAGATTCAGTAAGCATAGAAAATCAAGAGGTGACGTTTGTGCCGGT
TACGGTCGTGTTGGTAAACACAGAAAGCATCCAGGTGGTCGTGGTAATGCTGGTGGTCTC
ACTCATCACAGAATTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATTAGGTATG
AGACATTTCCATTTATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGAAAAGATC
TGGACTTTAGTCCCAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGGTACTGCT
CCAGTTGTTGATGTCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTATCCTCCCA
ACTCAACCAATCATCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAAAATCAAA
GCTGTCGGTGGTGCTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATAAATATAA
ATAAAAAAAGAATTAAATTAAAAAA
Length of 3' end seq. 495
Connected seq. ID VSD131P
Connected seq. 
>VSD131P.Seq
CAACCAGATTCAGTAAGCATAGAAAATCAAGAGGTGACGTTTGTGCCGGTTACGGTCGTG
TTGGTAAACACAGAAAGCATCCAGGTGGTCGTGGTAATGCTGGTGGTCTCACTCATCACA
GAATTAACTTTGACAAATACCATCCAGGTTATTTCGGTAAATTAGGTATGAGACATTTCC
ATTTATTAAGAAACCAATACCATTGTCCAACCGTCTCATTAGAAAAGATCTGGACTTTAG
TCCCAGAATCCGTCAGAAAATCATTAGCTGCCAAGAATGACGGTACTGCTCCAGTTGTTG
ATGTCACCCAAAAAGGTTTCTTCAAAGTTTTAGGTCACGGTATCCTCCCAACTCAACCAA
TCATCGTCAAAGCTCGTTATTTCTCTAAAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTG
GTGCTTGTATCTTAGTTGCTTAAATATTTTATACGAATCAATAAATATAAATAAAAAAAG
TAATTAAATTTAAAAAATTNNNNANAAAA----------CAACCAGATTCAGTAAGCATA
GAAAATCAAGAGGTGACGTTTGTGCCGGTTACGGTCGTGTTGGTAAACACAGAAAGCATC
CAGGTGGTCGTGGTAATGCTGGTGGTCTCACTCATCACAGAATTAACTTTGACAAATACC
ATCCAGGTTATTTCGGTAAATTAGGTATGAGACATTTCCATTTATTAAGAAACCAATACC
ATTGTCCAACCGTCTCATTAGAAAAGATCTGGACTTTAGTCCCAGAATCCGTCAGAAAAT
CATTAGCTGCCAAGAATGACGGTACTGCTCCAGTTGTTGATGTCACCCAAAAAGGTTTCT
TCAAAGTTTTAGGTCACGGTATCCTCCCAACTCAACCAATCATCGTCAAAGCTCGTTATT
TCTCTAAAGTCGCTGAAAAGAAAATCAAAGCTGTCGGTGGTGCTTGTATCTTAGTTGCTT
AAATATTTTATACGAATCAATAAATATAAATAAAAAAAGAATTAAATTAAAAAA
Length of connected seq. 1004
Full length Seq ID -
Full length Seq. -
Length of full length seq. -