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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
VSJ487
Library VS
(Link to library)
Clone ID VSJ487
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U04768-1
Original site URL
Representative seq. ID VSJ487P
(Link to Original site)
Representative DNA sequence 
>VSJ487 (VSJ487Q) /CSM/VS/VSJ4-D/VSJ487Q.Seq.d/
AAGAAAAAAAGTCTTATTTGTTTAAAAAAAAAAXXXXXXXXXXAAAAAAAAATAAANAAC
TTTATTCTTATTAAAATTTATATTGAATAAAATATAATAAGTATTTAAAAAATTTTTAAA
AAATGGTTATGATGCACGATGAATATATTTCACCCACAAAACTACAATTTGGTTTTATGA
TTGCAGTTGCATTTCTAGGTACTATAGGTGTAATGGGATTTTGTCAAAATGTATTTGATA
TTTTATTAGGTGTTATAAGTATTCTCTCAATTTATATTGGTATGAGAGGTGTTTGGAAAA
GAAAGAAAAGATGGTTATTTGTTTTTATGTGGCTTATGATGGGTATGGGATTTTTACATT
TAGTATCATTTGCAGTTGTAGTTATTCTTCATCATAAAAACCCAACTAAAAATACTGTTT
TTGGATTCGNACCAGATATTGTACANTGATATTTT
sequence update 2001. 3.22
Translated Amino Acid sequence 
KKKSLICLKKK---

---KKIXNFILIKIYIE*niisi*kifkkwl*ctmnifhpqnynlvl*lqlhf*vl*v*w
dfvkmylify*vl*vfsqfilv*evfgkerkdgylflcgl*wvwdfyi*yhlql*lffii
ktqlkilfldsxqilyxdi
Translated Amino Acid sequence (All Frames) 
Frame A:
KKKSLICLKKK---

---kkk*xtlfllkfilnki**vfkkflkngydar*iyfthkttiwfydcscisryyrcn
gilskci*yfircykyslnlywyerclekkekmvicfyvaydgygiftfsiicscsysss
*kpn*kycfwirtryctxif

Frame B:
rkkvlfv*kk---

---kknkxlysy*nly*ikynkylknf*kmvmmhdeyisptklqfgfmiavaflgtigvm
gfcqnvfdillgvisilsiyigmrgvwkrkkrwlfvfmwlmmgmgflhlvsfavvvilhh
knptkntvfgfxpdivx*yf

Frame C:
ekksylfkkk---

---KKIXNFILIKIYIE*niisi*kifkkwl*ctmnifhpqnynlvl*lqlhf*vl*v*w
dfvkmylify*vl*vfsqfilv*evfgkerkdgylflcgl*wvwdfyi*yhlql*lffii
ktqlkilfldsxqilyxdi
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ487 (VSJ487Q) /CSM/VS/VSJ4-D/VSJ487Q.Seq.d/                        644   0.0
SSC743 (SSC743Q) /CSM/SS/SSC7-B/SSC743Q.Seq.d/                        622   e-177
SSM806 (SSM806Q) /CSM/SS/SSM8-A/SSM806Q.Seq.d/                        224   9e-58
VHJ237 (VHJ237Q) /CSM/VH/VHJ2-B/VHJ237Q.Seq.d/                         36   0.44
VSI503 (VSI503Q) /CSM/VS/VSI5-A/VSI503Q.Seq.d/                         34   1.8
VSG781 (VSG781Q) /CSM/VS/VSG7-D/VSG781Q.Seq.d/                         34   1.8
VSF733 (VSF733Q) /CSM/VS/VSF7-B/VSF733Q.Seq.d/                         34   1.8
VSD872 (VSD872Q) /CSM/VS/VSD8-C/VSD872Q.Seq.d/                         34   1.8
VSC138 (VSC138Q) /CSM/VS/VSC1-B/VSC138Q.Seq.d/                         34   1.8
VFA259 (VFA259Q) /CSM/VF/VFA2-C/VFA259Q.Seq.d/                         34   1.8
own update 2004.12.25
Homology vs DNA 

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

AE014303|AE014303.1 Homo sapiens chromosome 13q34 schizophrenia region contig 2 section 3 of 3 of the complete sequence.    40  0.11  5
AC098702|AC098702.2 Felis catus clone RP86-555C22, WORKING DRAFT SEQUENCE, 7 ordered pieces.    40  0.16  2
AL160153|AL160153.11 Human DNA sequence from clone RP11-397O8 on chromosome 13 Contains  the 3' end of the ITBGL1 (integrin, beta-like 1 (with EGF-like  repeat domains)) gene, the 3' end of the FGF14 (fibroblast growth  factor 14) gene, ESTs, STSs, and GSSs.    40  0.24  4
AC108688|AC108688.5 Homo sapiens 3 BAC RP11-775J23 (Roswell Park Cancer Institute Human BAC Library) complete sequence.    38  0.26  7
CC298112|CC298112.1 CH261-178F9_Sp6.1 CH261 Gallus gallus genomic clone CH261-178F9, DNA sequence.    46  0.37  1
AP001562|AP001562.3 Homo sapiens genomic DNA, chromosome 18q21 clone:RP11-735P10, WORKING DRAFT SEQUENCE, 13 unordered pieces.    44  0.49  7
AE001421|AE001421.2 Plasmodium falciparum 3D7 chromosome 2 section 58 of 73 of the complete sequence.    34  0.67  5
AI573033|AI573033.1 tn65e09.x1 NCI_CGAP_Lym12 Homo sapiens cDNA clone IMAGE:2174440 3', mRNA sequence.    32  0.85  3
AL121601|AL121601.13 Human DNA sequence from clone RP1-315G1 on chromosome Xq24-25.  Contains a PDZ (DHR, GLGF) domain protein pseudogene, the API3 gene  for apoptosis inhibitor 3 (XIAP, HILP), a putative novel gene, ESTs, STSs, GSSs and a putative CpG island.    40  0.85  3
AC099898|AC099898.1 Mus musculus clone RP23-12A2, LOW-PASS SEQUENCE SAMPLING.    36  0.92  3
dna update 2003. 7.19
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CP000927_2426(CP000927|pid:none) Caulobacter sp. K31, complete g...    36   0.45
CP000480_4816(CP000480|pid:none) Mycobacterium smegmatis str. MC...    35   0.76
CP000628_1150(CP000628|pid:none) Agrobacterium radiobacter K84 c...    34   1.3
BA000028_3113(BA000028|pid:none) Oceanobacillus iheyensis HTE831...    34   1.7
CP000686_432(CP000686|pid:none) Roseiflexus sp. RS-1, complete g...    34   1.7
CP000943_3087(CP000943|pid:none) Methylobacterium sp. 4-46, comp...    33   2.2
AJ318062_1(AJ318062|pid:none) Cryptococcus neoformans mRNA for A...    32   4.9
AE017345_241(AE017345|pid:none) Cryptococcus neoformans var. neo...    32   4.9
DQ903908_1(DQ903908|pid:none) Cryptococcus neoformans var. grubi...    32   4.9
CP000875_3903(CP000875|pid:none) Herpetosiphon aurantiacus ATCC ...    32   6.5
protein update 2009. 3.25
PSORT 

 psg: 0.65  gvh: 0.03  alm: 0.51  top: 0.53  tms: 0.00  mit: 0.28  mip: 0.00
 nuc: 0.32  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 

	 76.0 %: nuclear
	 12.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for VSJ487 is nuc
5' end seq. ID VSJ487F
5' end seq. 
>VSJ487F.Seq
AAGAAAAAAAGTCTTATTTGTTTAAAAAAAAAA----------
Length of 5' end seq. 33
3' end seq. ID VSJ487Z
3' end seq. 
>VSJ487Z.Seq
----------AAAAAAAAATAAANAACTTTATTCTTATTAAAATTTATATTGAATAAAAT
ATAATAAGTATTTAAAAAATTTTTAAAAAATGGTTATGATGCACGATGAATATATTTCAC
CCACAAAACTACAATTTGGTTTTATGATTGCAGTTGCATTTCTAGGTACTATAGGTGTAA
TGGGATTTTGTCAAAATGTATTTGATATTTTATTAGGTGTTATAAGTATTCTCTCAATTT
ATATTGGTATGAGAGGTGTTTGGAAAAGAAAGAAAAGATGGTTATTTGTTTTTATGTGGC
TTATGATGGGTATGGGATTTTTACATTTAGTATCATTTGCAGTTGTAGTTATTCTTCATC
ATAAAAACCCAACTAAAAATACTGTTTTTGGATTCGNACCAGATATTGTACANTGATATT
TT
Length of 3' end seq. 412
Connected seq. ID VSJ487P
Connected seq. 
>VSJ487P.Seq
AAGAAAAAAAGTCTTATTTGTTTAAAAAAAAAA----------AAAAAAAAATAAANAAC
TTTATTCTTATTAAAATTTATATTGAATAAAATATAATAAGTATTTAAAAAATTTTTAAA
AAATGGTTATGATGCACGATGAATATATTTCACCCACAAAACTACAATTTGGTTTTATGA
TTGCAGTTGCATTTCTAGGTACTATAGGTGTAATGGGATTTTGTCAAAATGTATTTGATA
TTTTATTAGGTGTTATAAGTATTCTCTCAATTTATATTGGTATGAGAGGTGTTTGGAAAA
GAAAGAAAAGATGGTTATTTGTTTTTATGTGGCTTATGATGGGTATGGGATTTTTACATT
TAGTATCATTTGCAGTTGTAGTTATTCTTCATCATAAAAACCCAACTAAAAATACTGTTT
TTGGATTCGNACCAGATATTGTACANTGATATTTT
Length of connected seq. 445
Full length Seq ID -
Full length Seq. -
Length of full length seq. -