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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
VSJ556
Library VS
(Link to library)
Clone ID VSJ556
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15031-1
Original site URL
Representative seq. ID VSJ556E
(Link to Original site)
Representative DNA sequence 
>VSJ556 (VSJ556Q) /CSM/VS/VSJ5-C/VSJ556Q.Seq.d/
GTCTGAACAAATCAAAAAGCGTACTTTCAAAAAGTTCACATACTCTGGTGTTGCCTTAGA
GAGTCTCCTTGACTTAAAGGAAGAACAATTAATTTCATTATTGAGATGTCGTGCTCGTAG
AAAGTTAAGACGTGAAACCCCAATCAAACACGTCAACTTCTTAAAGAAATGCAGAGCCTC
AAAAGCCGCCGTTACCCAAGTCGGTGAAAAACCAGCCCTCGTCAAAACCCACGCTCGTAA
CATTTTAATTGTTCCAGAAATGATCGGTTCTGTCATTGGTATCTACAACGGTAAAGTTTT
CAATCAAGTTGAAGTTAAACCAGAAATGATTGGTCACTACACTGGTGAATTCTCACTCTC
ATACAAGAGTGTCAACCATGGTCGTCCAGGTATTGGTGCTACTCACTCTTCAAGATTCAT
CCCATTGAAGTAGATTTTTTATATATCTCTTGTAGCTTTGTTTTAAAATAATAAAGTATA
AAGTTATAAACAGT
sequence update 2001. 3.26
Translated Amino Acid sequence 
SEQIKKRTFKKFTYSGVALESLLDLKEEQLISLLRCRARRKLRRETPIKHVNFLKKCRAS
KAAVTQVGEKPALVKTHARNILIVPEMIGSVIGIYNGKVFNQVEVKPEMIGHYTGEFSLS
YKSVNHGRPGIGATHSSRFIPLK*ifyislvalf*nnkv*sykq
Translated Amino Acid sequence (All Frames) 
Frame A:
v*tnqkayfqkvhilwcclresp*lkgrtinfiiemscs*kvkt*npnqtrqllkemqsl
ksrrypsr*ktsprqnprs*hfncsrndrfchwylqr*sfqss*s*trndwslhw*iltl
iqecqpwssrywcyslfkihpievdflyiscsfvlk**sikl*t


Frame B:
SEQIKKRTFKKFTYSGVALESLLDLKEEQLISLLRCRARRKLRRETPIKHVNFLKKCRAS
KAAVTQVGEKPALVKTHARNILIVPEMIGSVIGIYNGKVFNQVEVKPEMIGHYTGEFSLS
YKSVNHGRPGIGATHSSRFIPLK*ifyislvalf*nnkv*sykq


Frame C:
lnksksvlsksshtlvlp*rvslt*rknn*fhy*dvvlves*dvkpqsntsts*rnaepq
kpplpksvknqpsskptlvtf*lfqk*svlslvsttvkfsiklklnqk*lvttlvnshsh
trvstmvvqvlvlltlqdssh*srffiyll*lcfkiikykvins
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ556 (VSJ556Q) /CSM/VS/VSJ5-C/VSJ556Q.Seq.d/                        979   0.0
VSI691 (VSI691Q) /CSM/VS/VSI6-D/VSI691Q.Seq.d/                        973   0.0
VSF361 (VSF361Q) /CSM/VS/VSF3-C/VSF361Q.Seq.d/                        965   0.0
VSF290 (VSF290Q) /CSM/VS/VSF2-D/VSF290Q.Seq.d/                        965   0.0
VFM738 (VFM738Q) /CSM/VF/VFM7-B/VFM738Q.Seq.d/                        965   0.0
FC-AM19 (FC-AM19Q) /CSM/FC/FC-AM/FC-AM19Q.Seq.d/                      965   0.0
FC-230 (FC-230Q) /CSM/CG/CG-FC/FC-230Q.Seq.d/                         965   0.0
VSE495 (VSE495Q) /CSM/VS/VSE4-D/VSE495Q.Seq.d/                        957   0.0
VSD279 (VSD279Q) /CSM/VS/VSD2-D/VSD279Q.Seq.d/                        957   0.0
VSH654 (VSH654Q) /CSM/VS/VSH6-C/VSH654Q.Seq.d/                        952   0.0
own update 2004.12.25
Homology vs DNA 

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

T37532|T37532.1 EST102680 S. cerevisiae strain X2180-1A Saccharomyces cerevisiae cDNA 3' end, mRNA sequence.    96  7e-19  3
T37414|T37414.1 EST102534 S. cerevisiae strain X2180-1A Saccharomyces cerevisiae cDNA 3' end, mRNA sequence.    96  8e-19  3
D11386|D11386.1 Saccharomyces cerevisiae mRNA for ribosomal protein S21, complete cds.    96  1e-18  3
AL400252|AL400252.1 T3 end of clone AS0AA020E04 of library AS0AA from strain CLIB 533 of Saccharomyces bayanus.   101  8e-18  1
Z74782|Z74782.1 S.cerevisiae chromosome XV reading frame ORF YOL040c.    96  1e-17  3
D11387|D11387.1 Saccharomyces cerevisiae gene for ribosomal protein S21, complete cds.    96  1e-17  3
T37264|T37264.1 EST102356 S. cerevisiae strain X2180-1A Saccharomyces cerevisiae cDNA 3' end, mRNA sequence.    90  3e-17  3
BI126497|BI126497.1 I076P40P Populus leaf cDNA library Populus tremula x Populus tremuloides cDNA, mRNA sequence.    64  7e-16  2
CB083063|CB083063.1 hn65h03.g1 Hedyotis centranthoides flower - Stage 2 (NYBG) Hedyotis centranthoides cDNA clone hn65h03, mRNA sequence.    76  3e-15  2
BM077526|BM077526.1 pb18f11.y1 Ancylostoma caninum L3 SS SL1 TOPO v1 Murphy Chiapelli McCarter Ancylostoma caninum cDNA 5' similar to TR:Q9XVP0 Q9XVP0 F36A2.6 PROTEIN. [1] ;, mRNA sequence.    70  3e-14  2
dna update 2003. 7.20
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AY741683_1(AY741683|pid:none) Aedes aegypti 40S ribosomal protei...   171   1e-41
EU195429_1(EU195429|pid:none) Mucor racemosus strain PTCC 5305 p...   170   2e-41
AM048956_1(AM048956|pid:none) Eucinetus sp. APV-2005 mRNA for ri...   168   5e-41
AY620991_1(AY620991|pid:none) Branchiostoma belcheri tsingtaunes...   167   9e-41
AM048967_1(AM048967|pid:none) Scarabaeus laticollis mRNA for rib...   167   2e-40
AF526224_1(AF526224|pid:none) Argopecten irradians isolate iolsa...   166   2e-40
AY561511_1(AY561511|pid:none) Danio rerio ribosomal protein S15 ...   166   3e-40
AY961526_1(AY961526|pid:none) Lysiphlebus testaceipes ribosomal ...   166   3e-40
AF400212_1(AF400212|pid:none) Spodoptera frugiperda ribosomal pr...   166   3e-40
EF207951_1(EF207951|pid:none) Heliconius melpomene ribosomal pro...   166   3e-40
protein update 2009. 3.25
PSORT 

 psg: 0.89  gvh: 0.37  alm: 0.38  top: 0.47  tms: 0.00  mit: 0.32  mip: 0.03
 nuc: 0.06  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 

	 60.0 %: cytoplasmic
	 28.0 %: nuclear
	  8.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for VSJ556 is cyt
5' end seq. ID VSJ556F
5' end seq. 
>VSJ556F.Seq
GTCTGAACAAATCAAAAAGCGTACTTTCAAAAAGTTCACATACTCTGGTGTTGCCTTAGA
GAGTCTCCTTGACTTAAAGGAAGAACAATTAATTTCATTATTGAGATGTCGTGCTCGTAG
AAAGTTAAGACGTGAAACCCCAATCAAACACGTCAACTTCTTAAAGAAATGCAGAGCCTC
AAAAGCCGCCGTTACCCAAGTCGGTGAAAAACCAGCCCTCGTCAAAACCCACGCTCGTAA
CATTTTAATTGTTCCAGAAATGATCGGTTCTGTCATTGGTATCTACAACGGTAAAGTTTT
CAATCAAGTTGAAGTTAAACCAGAAATGATTGGTCACTACACTGGTGAATTCTCACTCTC
ATACAAGAGTGTCAACCATGGTCGTCCAGGTATTGGTGCTACTCACTCTTCAAGATTCAT
CCCATTGAAGTAGATTTTTTATATATCTCTTG----------
Length of 5' end seq. 452
3' end seq. ID VSJ556Z
3' end seq. 
>VSJ556Z.Seq
----------GTCTGAACAAATCAAAAAGCGTACTTTCAAAAAGTTCACATACTCTGGTG
TTGCCTTAGAGAGTCTCCTTGACTTAAAGGAAGAACAATTAATTTCATTATTGAGATGTC
GTGCTCGTAGAAAGTTAAGACGTGAAACCCCAATCAAACACGTCAACTTCTTAAAGAAAT
GCAGAGCCTCAAAAGCCGCCGTTACCCAAGTCGGTGAAAAACCAGCCCTCGTCAAAACCC
ACGCTCGTAACATTTTAATTGTTCCAGAAATGATCGGTTCTGTCATTGGTATCTACAACG
GTAAAGTTTTCAATCAAGTTGAAGTTAAACCAGAAATGATTGGTCACTACACTGGTGAAT
TCTCACTCTCATACAAGAGTGTCAACCATGGTCGTCCAGGTATTGGTGCTACTCACTCTT
CAAGATTCATCCCATTGAAGTAGATTTTTTATATATCTCTTGTAGCTTTGTTTTAAAATA
ATAAAGTATAAAGTTATAAACAGT
Length of 3' end seq. 494
Connected seq. ID VSJ556P
Connected seq. 
>VSJ556P.Seq
GTCTGAACAAATCAAAAAGCGTACTTTCAAAAAGTTCACATACTCTGGTGTTGCCTTAGA
GAGTCTCCTTGACTTAAAGGAAGAACAATTAATTTCATTATTGAGATGTCGTGCTCGTAG
AAAGTTAAGACGTGAAACCCCAATCAAACACGTCAACTTCTTAAAGAAATGCAGAGCCTC
AAAAGCCGCCGTTACCCAAGTCGGTGAAAAACCAGCCCTCGTCAAAACCCACGCTCGTAA
CATTTTAATTGTTCCAGAAATGATCGGTTCTGTCATTGGTATCTACAACGGTAAAGTTTT
CAATCAAGTTGAAGTTAAACCAGAAATGATTGGTCACTACACTGGTGAATTCTCACTCTC
ATACAAGAGTGTCAACCATGGTCGTCCAGGTATTGGTGCTACTCACTCTTCAAGATTCAT
CCCATTGAAGTAGATTTTTTATATATCTCTTG----------GTCTGAACAAATCAAAAA
GCGTACTTTCAAAAAGTTCACATACTCTGGTGTTGCCTTAGAGAGTCTCCTTGACTTAAA
GGAAGAACAATTAATTTCATTATTGAGATGTCGTGCTCGTAGAAAGTTAAGACGTGAAAC
CCCAATCAAACACGTCAACTTCTTAAAGAAATGCAGAGCCTCAAAAGCCGCCGTTACCCA
AGTCGGTGAAAAACCAGCCCTCGTCAAAACCCACGCTCGTAACATTTTAATTGTTCCAGA
AATGATCGGTTCTGTCATTGGTATCTACAACGGTAAAGTTTTCAATCAAGTTGAAGTTAA
ACCAGAAATGATTGGTCACTACACTGGTGAATTCTCACTCTCATACAAGAGTGTCAACCA
TGGTCGTCCAGGTATTGGTGCTACTCACTCTTCAAGATTCATCCCATTGAAGTAGATTTT
TTATATATCTCTTGTAGCTTTGTTTTAAAATAATAAAGTATAAAGTTATAAACAGT
Length of connected seq. 946
Full length Seq ID VSJ556E
Full length Seq. 
>VSJ556E.Seq
GTCTGAACAAATCAAAAAGCGTACTTTCAAAAAGTTCACATACTCTGGTGTTGCCTTAGA
GAGTCTCCTTGACTTAAAGGAAGAACAATTAATTTCATTATTGAGATGTCGTGCTCGTAG
AAAGTTAAGACGTGAAACCCCAATCAAACACGTCAACTTCTTAAAGAAATGCAGAGCCTC
AAAAGCCGCCGTTACCCAAGTCGGTGAAAAACCAGCCCTCGTCAAAACCCACGCTCGTAA
CATTTTAATTGTTCCAGAAATGATCGGTTCTGTCATTGGTATCTACAACGGTAAAGTTTT
CAATCAAGTTGAAGTTAAACCAGAAATGATTGGTCACTACACTGGTGAATTCTCACTCTC
ATACAAGAGTGTCAACCATGGTCGTCCAGGTATTGGTGCTACTCACTCTTCAAGATTCAT
CCCATTGAAGTAGATTTTTTATATATCTCTTGTAGCTTTGTTTTAAAATAATAAAGTATA
AAGTTATAAACAGT
Length of full length seq. 494