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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
VSB586
Library VS
(Link to library)
Clone ID VSB586
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U01964-1
Original site URL
Representative seq. ID VSB586Z
(Link to Original site)
Representative DNA sequence 
>VSB586 (VSB586Q) /CSM/VS/VSB5-D/VSB586Q.Seq.d/
XXXXXXXXXXAAATATATAATTAAATAATTATAATTAAATTATTTTTATTTAAAAAAAAA
AAAAAAAAAAGTATCACTACATTCTATAACAATTTTTTTTTTTTTGTATCATTATCTAAA
CAAATTAAATTTTATATATTTTTTTTCTTTTTTTTAAAAAATAAATCTTGGAATTAAATA
GAAAAAAAAAAAAAAAAAGAAATTATAAAAAAAAAAAAAAAGAATAAAAAAATTAATAAC
CAACATAATCATAAATTAATAATAACTTATATAACGATAATTTTAACATTATTGTTAATT
TCCAAAGTGGCATCTTTCATATCATTTTTTAACTCCTTTGGTGGGGCATTC
sequence update 2000. 3.23
Translated Amino Acid sequence 
---iyn*iiiiklflfkkkkkksittfynnffffvslskqikfyiffffflknkswn*IE
KKKKKEIIKKKKKNKKINNQHNHKLIITYITIILTLLLISKVASFISFFNSFGGAF
Translated Amino Acid sequence (All Frames) 
Frame A:
---ni*lnnyn*iifi*kkkkkkyhyil*qffffciii*tn*ilyifflffkk*ilelnr
kkkkkrnykkkkke*kn**pt*s*innnlyndnfniivnfqsgifhiif*llwwgi


Frame B:
---iyn*iiiiklflfkkkkkksittfynnffffvslskqikfyiffffflknkswn*IE
KKKKKEIIKKKKKNKKINNQHNHKLIITYITIILTLLLISKVASFISFFNSFGGAF


Frame C:
---yiik*l*lnyfylkkkkkkvslhsitiffflyhylnklnfiyffsff*kinlgik*k
kkkkkkl*kkkkrikklitniiin***li*r*f*hyc*fpkwhlsyhfltplvgh
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSB586 (VSB586Q) /CSM/VS/VSB5-D/VSB586Q.Seq.d/                        119   3e-26
SSL751 (SSL751Q) /CSM/SS/SSL7-C/SSL751Q.Seq.d/                         66   4e-10
SSF289 (SSF289Q) /CSM/SS/SSF2-D/SSF289Q.Seq.d/                         50   2e-05
SHA209 (SHA209Q) /CSM/SH/SHA2-A/SHA209Q.Seq.d/                         50   2e-05
CHK633 (CHK633Q) /CSM/CH/CHK6-B/CHK633Q.Seq.d/                         50   2e-05
SHD539 (SHD539Q) /CSM/SH/SHD5-B/SHD539Q.Seq.d/                         42   0.005
SSI262 (SSI262Q) /CSM/SS/SSI2-C/SSI262Q.Seq.d/                         38   0.085
SLE171 (SLE171Q) /CSM/SL/SLE1-C/SLE171Q.Seq.d/                         38   0.085
SLC289 (SLC289Q) /CSM/SL/SLC2-D/SLC289Q.Seq.d/                         38   0.085
SHA457 (SHA457Q) /CSM/SH/SHA4-C/SHA457Q.Seq.d/                         38   0.085
own update 2004.12.25
Homology vs DNA 

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

K00918|K00918.1 paramecium species 7,227 mt dna dimer: replication init. region.    46  3e-04  2
BF779692|BF779692.1 3232-63 hindgut and Malpighian tubule cDNA library Ctenocephalides felis cDNA clone 3232-63, mRNA sequence.    56  3e-04  1
AC115578|AC115578.2 Dictyostelium discoideum chromosome 2 map complement(5018024-5005561) strain AX4, complete sequence.    50  0.002  3
L76261|L76261.1 Meloidogyne javanica mitochondrial transfer RNA His, 16S ribosomal RNA (16S rRNA) genes, ND3 gene, complete cds, and cytochrome b gene, 5' end of CDS.    52  0.002  2
AF293661|AF293661.1 Anopheles liangshanensis 12S ribosomal RNA gene, partial sequence; mitochondrial control region, complete sequence; and tRNA-Ile gene, partial sequence; mitochondrial genes for mitochondrial products.    46  0.003  2
CC664660|CC664660.1 OGJAN69TV ZM_0.7_1.5_KB Zea mays genomic clone ZMMBMa0295K18, genomic survey sequence.    46  0.010  2
BX569798|BX569798.2 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone.    48  0.014  4
BX530035|BX530035.6 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-257I19.    50  0.018  1
AZ131173|AZ131173.1 OSJNBb0105M23f CUGI Rice BAC Library (EcoRI) Oryza sativa genomic clone OSJNBb0105M23f, genomic survey sequence.    50  0.018  1
AB024693|AB024693.1 Leptospira interrogans serovar icterohaemorrhagiae OrfA, OrfB, OrfC, OrfD, OrfE, OrfF, OrfG, OrfH, tRNA-Ile, tRNA-Ala genes, complete cds and sequence.    50  0.018  1
dna update 2003. 8.20
Homology vs Protein 

 ***** No hits found ******

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3268448
Number of Hits to DB: 253,095,385
protein update 2009. 7.28
PSORT 

 psg: 0.19  gvh: 0.73  alm: 0.24  top: 0.07  tms: 0.07  mit: 0.19  mip: 0.00
 nuc: 0.35  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: 1.00  tyr: 0.16  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 : 1.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 24.0 %: nuclear
	 20.0 %: cytoplasmic
	 16.0 %: mitochondrial
	 16.0 %: Golgi
	 12.0 %: endoplasmic reticulum
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: peroxisomal

>> prediction for VSB586 is nuc
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID VSB586Z
3' end seq. 
>VSB586Z.Seq
----------AAATATATAATTAAATAATTATAATTAAATTATTTTTATTTAAAAAAAAA
AAAAAAAAAAGTATCACTACATTCTATAACAATTTTTTTTTTTTTGTATCATTATCTAAA
CAAATTAAATTTTATATATTTTTTTTCTTTTTTTTAAAAAATAAATCTTGGAATTAAATA
GAAAAAAAAAAAAAAAAAGAAATTATAAAAAAAAAAAAAAAGAATAAAAAAATTAATAAC
CAACATAATCATAAATTAATAATAACTTATATAACGATAATTTTAACATTATTGTTAATT
TCCAAAGTGGCATCTTTCATATCATTTTTTAACTCCTTTGGTGGGGCATTC
Length of 3' end seq. 341
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -