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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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
VSD437
Library VS
(Link to library)
Clone ID VSD437
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13793-1
Original site URL
Representative seq. ID VSD437P
(Link to Original site)
Representative DNA sequence 
>VSD437 (VSD437Q) /CSM/VS/VSD4-B/VSD437Q.Seq.d/
CATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGGTCTTC
CAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGTCATTG
CCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGATATGG
TCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGGTTTAG
TTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGAAGATA
ACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACCAGTCG
CCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACCATTGTTTAAA
TAAATACACATAAAGTTAAAACAATATAAAAAAAAAAXXXXXXXXXXCATAAATAATGTC
AAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGGTCTTCCAGTTGGTGCTGT
CATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGTCATTGCCGTCAAAGGTAT
CAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGATATGGTCATGGCTACCGT
CAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGGTTTAGTTGTCAGACAAAG
AAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGAAGATAACGCTGGTGTTAT
GTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACCAGTCGCCAAGGAATGCTC
CGATTTAGGCCAAAGGTTGCCACCAATGCCGGTACCA
sequence update 2001. 3.22
Translated Amino Acid sequence 
hk*cqkhkpsvvtteyhsvfqlvls*tvliilvpkiytslpskvskvv*idyhpqvlviw
swlpskrvnqn*erkfalv*lsdkentgrermvftsiskitlvlcviqkvkskvtfsdqs
prnapiygqrlppmpvplfk*IHIKLKQYKKK---

---INNVKSTSRR**lqsitrssswccheqc**fwcqkfirhcrqryqrsfk*itirrcw
*yghgyrqkg*trikkeslhwfscqtkktleekgwclhlfrr*rwcyv*skr*sqr*hsr
tsrqgmlrfrpkvatnagt
Translated Amino Acid sequence (All Frames) 
Frame A:
hk*cqkhkpsvvtteyhsvfqlvls*tvliilvpkiytslpskvskvv*idyhpqvlviw
swlpskrvnqn*erkfalv*lsdkentgrermvftsiskitlvlcviqkvkskvtfsdqs
prnapiygqrlppmpvplfk*IHIKLKQYKKK---

---hk*cqkhkpsvvtteyhsvfqlvls*tvliilvpkiytslpskvskvv*idyhpqvl
viwswlpskrvnqn*erkfalv*lsdkentgrermvftsiskitlvlcviqkvkskvtfs
dqsprnapi*akgchqcry

Frame B:
innvkstsrr**lqsitrssswccheqc**fwcqkfirhcrqryqrsfk*itirrcw*yg
hgyrqkg*trikkeslhwfscqtkktleekgwclhlfrr*rwcyv*skr*sqr*hsrtsr
qgmlrfmakgchqcryhclnkyt*s*nnikkk---

---INNVKSTSRR**lqsitrssswccheqc**fwcqkfirhcrqryqrsfk*itirrcw
*yghgyrqkg*trikkeslhwfscqtkktleekgwclhlfrr*rwcyv*skr*sqr*hsr
tsrqgmlrfrpkvatnagt

Frame C:
*imskaqavgsnyrvslglpvgavmnsadnsgaknlyviavkgikgrlnrlpsagvgdmv
matvkkgkpelrkkvctglvvrqrkhwkrkdgvyiyfednagvmcnpkgevkgnilgpva
kecsdlwpkvatnagtiv*inthkvkti*kk---

---*imskaqavgsnyrvslglpvgavmnsadnsgaknlyviavkgikgrlnrlpsagvg
dmvmatvkkgkpelrkkvctglvvrqrkhwkrkdgvyiyfednagvmcnpkgevkgnilg
pvakecsdlgqrlppmpvp
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSK191 (VSK191Q) /CSM/VS/VSK1-D/VSK191Q.Seq.d/                        886   0.0
VSJ725 (VSJ725Q) /CSM/VS/VSJ7-B/VSJ725Q.Seq.d/                        886   0.0
VSJ286 (VSJ286Q) /CSM/VS/VSJ2-D/VSJ286Q.Seq.d/                        886   0.0
VSJ195 (VSJ195Q) /CSM/VS/VSJ1-D/VSJ195Q.Seq.d/                        886   0.0
VSJ186 (VSJ186Q) /CSM/VS/VSJ1-D/VSJ186Q.Seq.d/                        886   0.0
VSI870 (VSI870Q) /CSM/VS/VSI8-C/VSI870Q.Seq.d/                        886   0.0
VSI106 (VSI106Q) /CSM/VS/VSI1-A/VSI106Q.Seq.d/                        886   0.0
VSH682 (VSH682Q) /CSM/VS/VSH6-D/VSH682Q.Seq.d/                        886   0.0
VSF856 (VSF856Q) /CSM/VS/VSF8-C/VSF856Q.Seq.d/                        886   0.0
VSF787 (VSF787Q) /CSM/VS/VSF7-D/VSF787Q.Seq.d/                        886   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  5e-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  6e-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  4e-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  6e-15  3
AY081677|AY081677.1 Arabidopsis thaliana similar to 60S ribosomal protein L17 (At1g04480) mRNA, complete cds.    48  2e-14  3
CD821332|CD821332.1 BN25.041I11F011127 BN25 Brassica napus cDNA clone BN25041I11, mRNA sequence.    54  2e-14  4
AX507764|AX507764.1 Sequence 2459 from Patent WO0216655.          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   8e-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   1e-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   5e-51
CP000498_170(CP000498|pid:none) Pichia stipitis CBS 6054 chromos...   203   5e-51
(Q5REU2) RecName: Full=60S ribosomal protein L23;  &CR857424_1(C...   203   5e-51
protein update 2009. 7.29
PSORT 

 psg: 0.65  gvh: -0.08  alm: 0.76  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 VSD437 is nuc
5' end seq. ID VSD437F
5' end seq. 
>VSD437F.Seq
CATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGGTCTTC
CAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGTCATTG
CCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGATATGG
TCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGGTTTAG
TTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGAAGATA
ACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACCAGTCG
CCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACCATTGTTTAAA
TAAATACACATAAAGTTAAAACAATATAAAAAAAAAA----------
Length of 5' end seq. 457
3' end seq. ID VSD437Z
3' end seq. 
>VSD437Z.Seq
----------CATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCA
CTCGGTCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTA
TACGTCATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTT
GGTGATATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGC
ACTGGTTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTAT
TTCGAAGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTC
GGACCAGTCGCCAAGGAATGCTCCGATTTAGGCCAAAGGTTGCCACCAATGCCGGTACCA
Length of 3' end seq. 410
Connected seq. ID VSD437P
Connected seq. 
>VSD437P.Seq
CATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGGTCTTC
CAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGTCATTG
CCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGATATGG
TCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGGTTTAG
TTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGAAGATA
ACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACCAGTCG
CCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATGCCGGTACCATTGTTTAAA
TAAATACACATAAAGTTAAAACAATATAAAAAAAAAA----------CATAAATAATGTC
AAAAGCACAAGCCGTCGGTAGTAACTACAGAGTATCACTCGGTCTTCCAGTTGGTGCTGT
CATGAACAGTGCTGATAATTCTGGTGCCAAAAATTTATACGTCATTGCCGTCAAAGGTAT
CAAAGGTCGTTTAAATAGATTACCATCCGCAGGTGTTGGTGATATGGTCATGGCTACCGT
CAAAAAGGGTAAACCAGAATTAAGAAAGAAAGTTTGCACTGGTTTAGTTGTCAGACAAAG
AAAACACTGGAAGAGAAAGGATGGTGTTTACATCTATTTCGAAGATAACGCTGGTGTTAT
GTGTAATCCAAAAGGTGAAGTCAAAGGTAACATTCTCGGACCAGTCGCCAAGGAATGCTC
CGATTTAGGCCAAAGGTTGCCACCAATGCCGGTACCA
Length of connected seq. 867
Full length Seq ID -
Full length Seq. -
Length of full length seq. -