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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
VSD225
Library VS
(Link to library)
Clone ID VSD225
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13793-1
Original site URL
Representative seq. ID VSD225P
(Link to Original site)
Representative DNA sequence 
>VSD225 (VSD225Q) /CSM/VS/VSD2-B/VSD225Q.Seq.d/
GTATACATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGG
TCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGT
CATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGA
TATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGG
TTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGA
AGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACC
AGTCGCCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACCATTGT
TTAAATAAATACACATAAAGTTAAAACAATATAAAAAAAAAAXXXXXXXXXXGTATACAT
AAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGGTCTTCCAG
TTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGTCATTGCCG
TCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGATATGGTCA
TGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGGTTTAGTTG
TCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGAAGATAACG
CTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACCAGTCGCCA
AGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACCATTGTTTAAATAA
ATACACATAAAGTTAAAACAATA
sequence update 2001. 3.22
Translated Amino Acid sequence 
ihk*cqkhkpsvvtteyhsvfqlvls*tvliilvpkiytslpskvskvv*idyhpqvlvi
wswlpskrvnqn*erkfalv*lsdkentgrermvftsiskitlvlcviqkvkskvtfsdq
sprnapiygqrlppmpvplfk*IHIKLKQYKKK---

---VYINNVKSTSRR**lqsitrssswccheqc**fwcqkfirhcrqryqrsfk*itirr
cw*yghgyrqkg*trikkeslhwfscqtkktleekgwclhlfrr*rwcyv*skr*sqr*h
srtsrqgmlrfmakgchqcryhclnkyt*s*nn
Translated Amino Acid sequence (All Frames) 
Frame A:
vyinnvkstsrr**lqsitrssswccheqc**fwcqkfirhcrqryqrsfk*itirrcw*
yghgyrqkg*trikkeslhwfscqtkktleekgwclhlfrr*rwcyv*skr*sqr*hsrt
srqgmlrfmakgchqcryhclnkyt*s*nnikkk---

---VYINNVKSTSRR**lqsitrssswccheqc**fwcqkfirhcrqryqrsfk*itirr
cw*yghgyrqkg*trikkeslhwfscqtkktleekgwclhlfrr*rwcyv*skr*sqr*h
srtsrqgmlrfmakgchqcryhclnkyt*s*nn

Frame B:
yt*imskaqavgsnyrvslglpvgavmnsadnsgaknlyviavkgikgrlnrlpsagvgd
mvmatvkkgkpelrkkvctglvvrqrkhwkrkdgvyiyfednagvmcnpkgevkgnilgp
vakecsdlwpkvatnagtiv*inthkvkti*kk---

---yt*imskaqavgsnyrvslglpvgavmnsadnsgaknlyviavkgikgrlnrlpsag
vgdmvmatvkkgkpelrkkvctglvvrqrkhwkrkdgvyiyfednagvmcnpkgevkgni
lgpvakecsdlwpkvatnagtiv*inthkvkti

Frame C:
ihk*cqkhkpsvvtteyhsvfqlvls*tvliilvpkiytslpskvskvv*idyhpqvlvi
wswlpskrvnqn*erkfalv*lsdkentgrermvftsiskitlvlcviqkvkskvtfsdq
sprnapiygqrlppmpvplfk*IHIKLKQYKKK---

---ihk*cqkhkpsvvtteyhsvfqlvls*tvliilvpkiytslpskvskvv*idyhpqv
lviwswlpskrvnqn*erkfalv*lsdkentgrermvftsiskitlvlcviqkvkskvtf
sdqsprnapiygqrlppmpvplfk*ihiklkq
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ195 (VSJ195Q) /CSM/VS/VSJ1-D/VSJ195Q.Seq.d/                        896   0.0
VSJ186 (VSJ186Q) /CSM/VS/VSJ1-D/VSJ186Q.Seq.d/                        896   0.0
VSF856 (VSF856Q) /CSM/VS/VSF8-C/VSF856Q.Seq.d/                        896   0.0
VSF463 (VSF463Q) /CSM/VS/VSF4-C/VSF463Q.Seq.d/                        896   0.0
VSF104 (VSF104Q) /CSM/VS/VSF1-A/VSF104Q.Seq.d/                        896   0.0
VSE769 (VSE769Q) /CSM/VS/VSE7-C/VSE769Q.Seq.d/                        896   0.0
VSE109 (VSE109Q) /CSM/VS/VSE1-A/VSE109Q.Seq.d/                        896   0.0
VSD225 (VSD225Q) /CSM/VS/VSD2-B/VSD225Q.Seq.d/                        896   0.0
VSB365 (VSB365Q) /CSM/VS/VSB3-C/VSB365Q.Seq.d/                        896   0.0
VSA865 (VSA865Q) /CSM/VS/VSA8-C/VSA865Q.Seq.d/                        896   0.0
own update 2001.11.12
Homology vs DNA 

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

BG661762|BG661762.1 kx06a08.y1 Parastrongyloides trichosuri IL SL1 TOPO v2 Parastrongyloides trichosuri cDNA similar to SW:RL23_CAEEL P48158 PROBABLE 60S RIBOSOMAL PROTEIN L23. [1] ;, mRNA sequence.    64  6e-32  5
BG301543|BG301543.1 kt02d05.y1 Strongyloides ratti L1 SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RL23_CAEEL P48158 PROBABLE 60S RIBOSOMAL PROTEIN L23. [1] ;, mRNA sequence.    66  2e-21  4
BG301842|BG301842.1 kt06b05.y1 Strongyloides ratti L3 adult SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RL23_CAEEL P48158 PROBABLE 60S RIBOSOMAL PROTEIN L23. [1] ;, mRNA sequence.    66  2e-21  4
BG301372|BG301372.1 kt04f05.y1 Strongyloides ratti L1 SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RL23_CAEEL P48158 PROBABLE 60S RIBOSOMAL PROTEIN L23. [1] ;, mRNA sequence.    66  8e-21  4
BG661420|BG661420.1 kx01f05.y1 Parastrongyloides trichosuri IL SL1 TOPO v2 Parastrongyloides trichosuri cDNA similar to SW:RL23_CAEEL P48158 PROBABLE 60S RIBOSOMAL PROTEIN L23. [1] ;, mRNA sequence.    50  5e-19  4
AV536650|AV536650.1 Arabidopsis thaliana cDNA clone:pAZNII0387R, 5' end.    52  3e-16  3
Z47587|Z47587.1 A. thaliana transcribed sequence; clone FAI235; 5' end; Similar to 60S ribosomal protein L1 ; Nicotiana tabacum.    48  7e-15  3
AY081677|AY081677.1 Arabidopsis thaliana similar to 60S ribosomal protein L17 (At1g04480) mRNA, complete cds.    48  2e-14  3
AX507764|AX507764.1 Sequence 2459 from Patent WO0216655.          48  2e-14  3
AV535717|AV535717.1 Arabidopsis thaliana cDNA clone:FB101a09F, 3' end.    48  2e-14  3
dna update 2003. 8.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q6PC14) RecName: Full=60S ribosomal protein L23;  &AY684289_1(A...   206   9e-52
AK012694_1(AK012694|pid:none) Mus musculus 10, 11 days embryo wh...   206   1e-51
BC102556_1(BC102556|pid:none) Bos taurus ribosomal protein L23, ...   205   2e-51
BT058333_1(BT058333|pid:none) Salmo salar clone Contig3997 60S r...   205   2e-51
BT073700_1(BT073700|pid:none) Oncorhynchus mykiss clone omyk-evo...   205   2e-51
EU042114_1(EU042114|pid:none) Epinephelus coioides ribosomal pro...   205   2e-51
BC003518_1(BC003518|pid:none) Homo sapiens, Similar to ribosomal...   205   2e-51
BC073541_1(BC073541|pid:none) Xenopus laevis MGC82808 protein, m...   203   6e-51
CP000498_170(CP000498|pid:none) Pichia stipitis CBS 6054 chromos...   203   6e-51
(Q5REU2) RecName: Full=60S ribosomal protein L23;  &CR857424_1(C...   203   6e-51
protein update 2009. 7.29
PSORT 

 psg: 0.65  gvh: -0.07  alm: 0.70  top: 0.53  tms: 0.00  mit: 0.45  mip: 0.00
 nuc: 0.24  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 

	 72.0 %: nuclear
	 12.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for VSD225 is nuc
5' end seq. ID VSD225F
5' end seq. 
>VSD225F.Seq
GTATACATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGG
TCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGT
CATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGA
TATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGG
TTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGA
AGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACC
AGTCGCCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACCATTGT
TTAAATAAATACACATAAAGTTAAAACAATATAAAAAAAAAA----------
Length of 5' end seq. 462
3' end seq. ID VSD225Z
3' end seq. 
>VSD225Z.Seq
----------GTATACATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAG
TATCACTCGGTCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAA
ATTTATACGTCATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAG
GTGTTGGTGATATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAG
TTTGCACTGGTTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACA
TCTATTTCGAAGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACA
TTCTCGGACCAGTCGCCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCG
GTACCATTGTTTAAATAAATACACATAAAGTTAAAACAATA
Length of 3' end seq. 451
Connected seq. ID VSD225P
Connected seq. 
>VSD225P.Seq
GTATACATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGG
TCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGT
CATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGA
TATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGG
TTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGA
AGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACC
AGTCGCCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACCATTGT
TTAAATAAATACACATAAAGTTAAAACAATATAAAAAAAAAA----------GTATACAT
AAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGGTCTTCCAG
TTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGTCATTGCCG
TCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGATATGGTCA
TGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGGTTTAGTTG
TCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGAAGATAACG
CTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACCAGTCGCCA
AGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACCATTGTTTAAATAA
ATACACATAAAGTTAAAACAATA
Length of connected seq. 913
Full length Seq ID -
Full length Seq. -
Length of full length seq. -