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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
VSD653
Library VS
(Link to library)
Clone ID VSD653
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16521-1
Original site URL
Representative seq. ID VSD653E
(Link to Original site)
Representative DNA sequence 
>VSD653 (VSD653Q) /CSM/VS/VSD6-C/VSD653Q.Seq.d/
GAAAATCAGTTCGTGGTTGTATCGTTGCTGAAGATATCGCCTCTTTACAATTAATGCATT
GTCAAGAAAGGTGATGCTGAAATTCCAGGCCTCACTGATGTCTCATTCCCAGCCTCAAAA
GGTCCAAAGAGAGCCTCAAACATTAGAAAACTCTTCAAATTATCAAAAGACGAAGATGTC
CGTTCTTTCGTCATCCGTCGTGAATTACCAGCCACCGACAAAAGAAAAGCTAAATCAAAA
GCACCAAAGATCCAACGTTTAGTTACCCCAACCACCGTTGCCCGTAGAAAGGCTCTCCGT
GCTAAAAAAGCTGCTCGTCACACTAAAGCCAGCAATGAAGCCGCCGAATACGCTAAACTC
GTTGCCCAAAGACAACAAGCTAAAGCCAAGAGATCCGTCAAAGTTTCAAGCAAAAAAGTT
GTTGCCAAGTAAATAAATAA
sequence update 2001. 3.25
Translated Amino Acid sequence 
enqfvvvsllkisplyn*CIVKKGDAEIPGLTDVSFPASKGPKRASNIRKLFKLSKDEDV
RSFVIRRELPATDKRKAKSKAPKIQRLVTPTTVARRKALRAKKAARHTKASNEAAEYAKL
VAQRQQAKAKRSVKVSSKKVVAK*in
Translated Amino Acid sequence (All Frames) 
Frame A:
enqfvvvsllkisplyn*CIVKKGDAEIPGLTDVSFPASKGPKRASNIRKLFKLSKDEDV
RSFVIRRELPATDKRKAKSKAPKIQRLVTPTTVARRKALRAKKAARHTKASNEAAEYAKL
VAQRQQAKAKRSVKVSSKKVVAK*in


Frame B:
kisswlyrc*ryrlftinalsrkvmlkfqaslmshsqpqkvqrepqtlenssnyqktkms
vlsssvvnyqpptkeklnqkhqrsnv*lpqpplpverlsvlkkllvtlkpamkppntlns
lpkdnklkprdpskfqakkllpsk*i


Frame C:
ksvrgcivaediaslqlmhcqer*c*nsrph*clipslkrskeslkh*ktlqiikrrrcp
ffrhps*itshrqkks*ikstkdptfsypnhrcp*kgspc*kscssh*sqq*srrir*tr
cpktts*sqeirqsfkqksccqvnk*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSD653 (VSD653Q) /CSM/VS/VSD6-C/VSD653Q.Seq.d/                        872   0.0
VSJ585 (VSJ585Q) /CSM/VS/VSJ5-D/VSJ585Q.Seq.d/                        856   0.0
VSC551 (VSC551Q) /CSM/VS/VSC5-C/VSC551Q.Seq.d/                        856   0.0
VSC395 (VSC395Q) /CSM/VS/VSC3-D/VSC395Q.Seq.d/                        856   0.0
SLE610 (SLE610Q) /CSM/SL/SLE6-A/SLE610Q.Seq.d/                        856   0.0
SLA276 (SLA276Q) /CSM/SL/SLA2-D/SLA276Q.Seq.d/                        856   0.0
FC-AY04 (FC-AY04Q) /CSM/FC/FC-AY/FC-AY04Q.Seq.d/                      856   0.0
FC-AR19 (FC-AR19Q) /CSM/FC/FC-AR/FC-AR19Q.Seq.d/                      856   0.0
FC-AP05 (FC-AP05Q) /CSM/FC/FC-AP/FC-AP05Q.Seq.d/                      856   0.0
FC-AJ17 (FC-AJ17Q) /CSM/FC/FC-AJ/FC-AJ17Q.Seq.d/                      856   0.0
own update 2004. 8. 9
Homology vs DNA 

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

CB085324|CB085324.1 qp82h05.g1 Hedyotis centranthoides flower -Stage 2 (NYBG) Hedyotis centranthoides cDNA clone qp82h05, mRNA sequence.    44  6e-05  3
AL112617|AL112617.1 Botrytis cinerea strain T4 cDNA library under conditions of nitrogen deprivation.    42  0.009  3
AL115210|AL115210.1 Botrytis cinerea strain T4 cDNA library under conditions of nitrogen deprivation.    42  0.011  3
AL111085|AL111085.1 Botrytis cinerea strain T4 cDNA library under conditions of nitrogen deprivation.    42  0.011  3
AL111671|AL111671.1 Botrytis cinerea strain T4 cDNA library under conditions of nitrogen deprivation.    42  0.012  3
AL116802|AL116802.1 Botrytis cinerea strain T4 cDNA library under conditions of nitrogen deprivation.    42  0.012  3
AL117105|AL117105.1 Botrytis cinerea strain T4 cDNA library under conditions of nitrogen deprivation.    42  0.013  3
BM512971|BM512971.1 kx82h01.y1 Parastrongyloides trichosuri FL SL1 TOPO v1 Murphy Chiapelli McCarter Parastrongyloides trichosuri cDNA 5' similar to SW:RS6_SCHPO P05752 40S RIBOSOMAL PROTEIN S6. ;, mRNA sequence.    34  0.60  2
AL115025|AL115025.1 Botrytis cinerea strain T4 cDNA library under conditions of nitrogen deprivation.    42  0.84  2
AL116773|AL116773.1 Botrytis cinerea strain T4 cDNA library under conditions of nitrogen deprivation.    42  0.87  2
dna update 2003. 9.20
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54UU3) RecName: Full=40S ribosomal protein S6;                      168   2e-45
(Q9BMX5) RecName: Full=40S ribosomal protein S6;  &AF294917_1(AF...   111   9e-25
(Q2PQM1) RecName: Full=40S ribosomal protein S6;  &DQ307202_1(DQ...   112   1e-24
AE014298_1126(AE014298|pid:none) Drosophila melanogaster chromos...   110   4e-24
AY752838_1(AY752838|pid:none) Culicoides sonorensis clone CsRPS6...   107   1e-23
AY095266_1(AY095266|pid:none) Culicoides sonorensis RPS6 mRNA, p...   107   1e-23
AJ438987_1(AJ438987|pid:none) Paracentrotus lividus mRNA for S6 ...   106   4e-23
AM048933_1(AM048933|pid:none) Carabus granulatus partial mRNA fo...   107   6e-23
DQ530503_1(DQ530503|pid:none) Bittacomorpha clavipes ribosomal p...   106   6e-23
(Q9U761) RecName: Full=40S ribosomal protein S6;                      103   1e-22
protein update 2009. 7.30
PSORT 

 psg: 0.77  gvh: 0.33  alm: 0.57  top: 0.53  tms: 0.00  mit: 0.17  mip: 0.00
 nuc: 0.16  erl: 0.00  erm: 0.20  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 

	 52.0 %: nuclear
	 40.0 %: cytoplasmic
	  8.0 %: cytoskeletal

>> prediction for VSD653 is nuc
5' end seq. ID VSD653F
5' end seq. 
>VSD653F.Seq
GAAAATCAGTTCGTGGTTGTATCGTTGCTGAAGATATCGCCTCTTTACAATTAATGCATT
GTCAAGAAAGGTGATGCTGAAATTCCAGGCCTCACTGATGTCTCATTCCCAGCCTCAAAA
GGTCCAAAGAGAGCCTCAAACATTAGAAAACTCTTCAAATTATCAAAAGACGAAGATGTC
CGTTCTTTCGTCATCCGTCGTGAATTACCAGCCACCGACAAAAGAAAAG----------
Length of 5' end seq. 229
3' end seq. ID VSD653Z
3' end seq. 
>VSD653Z.Seq
----------GAAAATCAGTTCGTGGTTGTATCGTTGCTGAAGATATCGCCTCTTTACAA
TTAATCATTGTCAAGAAAGGTGATGCTGAAATTCCAGGCCTCACTGATGTCTCATTCCCA
GCCTCAAAAGGTCCAAAGAGAGCCTCAAACATTAGAAAACTCTTCAAATTATCAAAAGAC
GAAGATGTCCGTTCTTTCGTCATCCGTCGTGAATTACCAGCCACCGACAAAAGAAAAGCT
AAATCAAAAGCACCAAAGATCCAACGTTTAGTTACCCCAACCACCGTTGCCCGTAGAAAG
GCTCTCCGTGCTAAAAAAGCTGCTCGTCACACTAAAGCCAGCAATGAAGCCGCCGAATAC
GCTAAACTCGTTGCCCAAAGACAACAAGCTAAAGCCAAGAGATCCGTCAAAGTTTCAAGC
AAAAAAGTTGTTGCCAAGTAAATAAATAA
Length of 3' end seq. 439
Connected seq. ID VSD653P
Connected seq. 
>VSD653P.Seq
GAAAATCAGTTCGTGGTTGTATCGTTGCTGAAGATATCGCCTCTTTACAATTAATGCATT
GTCAAGAAAGGTGATGCTGAAATTCCAGGCCTCACTGATGTCTCATTCCCAGCCTCAAAA
GGTCCAAAGAGAGCCTCAAACATTAGAAAACTCTTCAAATTATCAAAAGACGAAGATGTC
CGTTCTTTCGTCATCCGTCGTGAATTACCAGCCACCGACAAAAGAAAAG----------G
AAAATCAGTTCGTGGTTGTATCGTTGCTGAAGATATCGCCTCTTTACAATTAATCATTGT
CAAGAAAGGTGATGCTGAAATTCCAGGCCTCACTGATGTCTCATTCCCAGCCTCAAAAGG
TCCAAAGAGAGCCTCAAACATTAGAAAACTCTTCAAATTATCAAAAGACGAAGATGTCCG
TTCTTTCGTCATCCGTCGTGAATTACCAGCCACCGACAAAAGAAAAGCTAAATCAAAAGC
ACCAAAGATCCAACGTTTAGTTACCCCAACCACCGTTGCCCGTAGAAAGGCTCTCCGTGC
TAAAAAAGCTGCTCGTCACACTAAAGCCAGCAATGAAGCCGCCGAATACGCTAAACTCGT
TGCCCAAAGACAACAAGCTAAAGCCAAGAGATCCGTCAAAGTTTCAAGCAAAAAAGTTGT
TGCCAAGTAAATAAATAA
Length of connected seq. 668
Full length Seq ID VSD653E
Full length Seq. 
>VSD653E.Seq
GAAAATCAGTTCGTGGTTGTATCGTTGCTGAAGATATCGCCTCTTTACAATTAATGCATT
GTCAAGAAAGGTGATGCTGAAATTCCAGGCCTCACTGATGTCTCATTCCCAGCCTCAAAA
GGTCCAAAGAGAGCCTCAAACATTAGAAAACTCTTCAAATTATCAAAAGACGAAGATGTC
CGTTCTTTCGTCATCCGTCGTGAATTACCAGCCACCGACAAAAGAAAAGCTAAATCAAAA
GCACCAAAGATCCAACGTTTAGTTACCCCAACCACCGTTGCCCGTAGAAAGGCTCTCCGT
GCTAAAAAAGCTGCTCGTCACACTAAAGCCAGCAATGAAGCCGCCGAATACGCTAAACTC
GTTGCCCAAAGACAACAAGCTAAAGCCAAGAGATCCGTCAAAGTTTCAAGCAAAAAAGTT
GTTGCCAAGTAAATAAATAA
Length of full length seq. 440