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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
VHP304
Library VH
(Link to library)
Clone ID VHP304
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13793-1|Contig-U16358-1
Original site URL
Representative seq. ID VHP304P
(Link to Original site)
Representative DNA sequence 
>VHP304 (VHP304Q) /CSM/VH/VHP3-A/VHP304Q.Seq.d/
ATNAGTTTTCGTTGTATACATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACA
GAGTATCACTCGGTCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCA
AAAATTTATACGTCATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCG
CAGGTGTTGGTGATATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGA
AAGTTTGCACTGGTTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTT
ACATCTATTTCGAAGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTA
ACATTCTCGGACCAGTCGCCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATG
CCGGTACCATTGTTTAAATAAATACACATAAAGTTAAAACAATATANAAAAAAAAXXXXX
XXXXXCAATGCCATCGTTGTTGNTGAAGATGNTGATATTGAACTCGTTNTCCGTGCCGTT
CTCTTTGCTTCTGTTGGTACCACTGGACAACGTTGTACCACTTGTAGACGTTTATTCGTT
CACGAATCATTGTATGACACCATTTTGGAACG
sequence update 2002.10.25
Translated Amino Acid sequence 
xfslyt*imskaqavgsnyrvslglpvgavmnsadnsgaknlyviavkgikgrlnrlpsa
gvgdmvmatvkkgkpelrkkvctglvvrqrkhwkrkdgvyiyfednagvmcnpkgevkgn
ilgpvakecsdlwpkvatnagtiv*INTHKVKTIXKK---

---NAIVVXEDXDIELVXRAVLFASVGTTGQRCTTCRRLFVHESLYDTILE
Translated Amino Acid sequence (All Frames) 
Frame A:
xsfrcihk*cqkhkpsvvtteyhsvfqlvls*tvliilvpkiytslpskvskvv*idyhp
qvlviwswlpskrvnqn*erkfalv*lsdkentgrermvftsiskitlvlcviqkvkskv
tfsdqsprnapiygqrlppmpvplfk*ihiklkqyxkk---

---qchrcx*rx*y*trxpcrslcfcwyhwttlyhl*tfirsriiv*hhfgt

Frame B:
xvfvvyinnvkstsrr**lqsitrssswccheqc**fwcqkfirhcrqryqrsfk*itir
rcw*yghgyrqkg*trikkeslhwfscqtkktleekgwclhlfrr*rwcyv*skr*sqr*
hsrtsrqgmlrfmakgchqcryhclnkyt*s*nnixkk---

---NAIVVXEDXDIELVXRAVLFASVGTTGQRCTTCRRLFVHESLYDTILE

Frame C:
xfslyt*imskaqavgsnyrvslglpvgavmnsadnsgaknlyviavkgikgrlnrlpsa
gvgdmvmatvkkgkpelrkkvctglvvrqrkhwkrkdgvyiyfednagvmcnpkgevkgn
ilgpvakecsdlwpkvatnagtiv*INTHKVKTIXKK---

---mpsllxkmxilnsxsvpfsllllvpldnvvplvdvysftnhcmtpfwn
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHP304 (VHP304Q) /CSM/VH/VHP3-A/VHP304Q.Seq.d/                        916   0.0
VSJ186 (VSJ186Q) /CSM/VS/VSJ1-D/VSJ186Q.Seq.d/                        914   0.0
VSF856 (VSF856Q) /CSM/VS/VSF8-C/VSF856Q.Seq.d/                        914   0.0
VSF463 (VSF463Q) /CSM/VS/VSF4-C/VSF463Q.Seq.d/                        914   0.0
VSF104 (VSF104Q) /CSM/VS/VSF1-A/VSF104Q.Seq.d/                        914   0.0
VSE769 (VSE769Q) /CSM/VS/VSE7-C/VSE769Q.Seq.d/                        914   0.0
VSB365 (VSB365Q) /CSM/VS/VSB3-C/VSB365Q.Seq.d/                        914   0.0
VSD585 (VSD585Q) /CSM/VS/VSD5-D/VSD585Q.Seq.d/                        910   0.0
VSB254 (VSB254Q) /CSM/VS/VSB2-C/VSB254Q.Seq.d/                        910   0.0
VSA865 (VSA865Q) /CSM/VS/VSA8-C/VSA865Q.Seq.d/                        904   0.0
own update 2003. 1. 7
Homology vs DNA 

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

(BJ427040) Dictyostelium discoideum cDNA clone:ddv61h01, 5' ...   918   0.0    1
(AU269540) Dictyostelium discoideum vegetative cDNA clone:VS...   916   0.0    1
(AU265901) Dictyostelium discoideum vegetative cDNA clone:VS...   916   0.0    1
(AU265273) Dictyostelium discoideum vegetative cDNA clone:VS...   916   0.0    1
(AU264715) Dictyostelium discoideum vegetative cDNA clone:VS...   916   0.0    1
(AU263362) Dictyostelium discoideum vegetative cDNA clone:VS...   916   0.0    1
(AU261978) Dictyostelium discoideum vegetative cDNA clone:VS...   916   0.0    1
(AU264274) Dictyostelium discoideum vegetative cDNA clone:VS...   910   0.0    1
(AU261920) Dictyostelium discoideum vegetative cDNA clone:VS...   910   0.0    1
(AU261794) Dictyostelium discoideum vegetative cDNA clone:VS...   906   0.0    1
dna update 2008.12.16
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q6PC14) RecName: Full=60S ribosomal protein L23;  &AY684289_1(A...   206   4e-52
AK012694_1(AK012694|pid:none) Mus musculus 10, 11 days embryo wh...   206   6e-52
BC102556_1(BC102556|pid:none) Bos taurus ribosomal protein L23, ...   205   8e-52
BT058333_1(BT058333|pid:none) Salmo salar clone Contig3997 60S r...   205   1e-51
BT073700_1(BT073700|pid:none) Oncorhynchus mykiss clone omyk-evo...   205   1e-51
EU042114_1(EU042114|pid:none) Epinephelus coioides ribosomal pro...   205   1e-51
BC003518_1(BC003518|pid:none) Homo sapiens, Similar to ribosomal...   205   1e-51
BC073541_1(BC073541|pid:none) Xenopus laevis MGC82808 protein, m...   203   3e-51
CP000498_170(CP000498|pid:none) Pichia stipitis CBS 6054 chromos...   203   3e-51
(Q5REU2) RecName: Full=60S ribosomal protein L23;  &CR857424_1(C...   203   3e-51
protein update 2009. 7.20
PSORT 

 psg: 0.63  gvh: 0.54  alm: 0.42  top: 0.53  tms: 0.00  mit: 0.25  mip: 0.00
 nuc: 0.00  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 

	 32.0 %: cytoplasmic
	 32.0 %: nuclear
	 24.0 %: mitochondrial
	  8.0 %: cytoskeletal
	  4.0 %: vacuolar

>> prediction for VHP304 is cyt
5' end seq. ID VHP304F
5' end seq. 
>VHP304F.Seq
ATNAGTTTTCGTTGTATACATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACA
GAGTATCACTCGGTCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCA
AAAATTTATACGTCATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCG
CAGGTGTTGGTGATATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGA
AAGTTTGCACTGGTTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTT
ACATCTATTTCGAAGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTA
ACATTCTCGGACCAGTCGCCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATG
CCGGTACCATTGTTTAAATAAATACACATAAAGTTAAAACAATATANAAAAAAAANNNNN
NNNNN
Length of 5' end seq. 485
3' end seq. ID VHP304Z
3' end seq. 
>VHP304Z.Seq
NNNNNNNNNNCAATGCCATCGTTGTTGNTGAAGATGNTGATATTGAACTCGTTNTCCGTG
CCGTTCTCTTTGCTTCTGTTGGTACCACTGGACAACGTTGTACCACTTGTAGACGTTTAT
TCGTTCACGAATCATTGTATGACACCATTTTGGAACG
Length of 3' end seq. 157
Connected seq. ID VHP304P
Connected seq. 
>VHP304P.Seq
ATNAGTTTTCGTTGTATACATAAATAATGTCAAAAGCACAAGCCGTCGGTAGTAACTACA
GAGTATCACTCGGTCTTCCAGTTGGTGCTGTCATGAACAGTGCTGATAATTCTGGTGCCA
AAAATTTATACGTCATTGCCGTCAAAGGTATCAAAGGTCGTTTAAATAGATTACCATCCG
CAGGTGTTGGTGATATGGTCATGGCTACCGTCAAAAAGGGTAAACCAGAATTAAGAAAGA
AAGTTTGCACTGGTTTAGTTGTCAGACAAAGAAAACACTGGAAGAGAAAGGATGGTGTTT
ACATCTATTTCGAAGATAACGCTGGTGTTATGTGTAATCCAAAAGGTGAAGTCAAAGGTA
ACATTCTCGGACCAGTCGCCAAGGAATGCTCCGATTTATGGCCAAAGGTTGCCACCAATG
CCGGTACCATTGTTTAAATAAATACACATAAAGTTAAAACAATATANAAAAAAAA-----
-----CAATGCCATCGTTGTTGNTGAAGATGNTGATATTGAACTCGTTNTCCGTGCCGTT
CTCTTTGCTTCTGTTGGTACCACTGGACAACGTTGTACCACTTGTAGACGTTTATTCGTT
CACGAATCATTGTATGACACCATTTTGGAACG
Length of connected seq. 622
Full length Seq ID -
Full length Seq. -
Length of full length seq. -