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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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
VSD518
Library VS
(Link to library)
Clone ID VSD518
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U06466-1
Original site URL
Representative seq. ID VSD518P
(Link to Original site)
Representative DNA sequence 
>VSD518 (VSD518Q) /CSM/VS/VSD5-A/VSD518Q.Seq.d/
GGAAGATAAAAGAGATTTAAAATGGGAGGAATTTGAAAGAGTGGATATGAGAGTTGGAAC
AATAATCCAAGTTGATGATTTCCCAGAAGCAAGAAAACCTGCCTACCAATTAACCATTGA
TTTTGGTGAAACCATTGGAATTCGTAAATCCTCGGCACAAATTACAAAGAGATATAATAA
AGAAGATTTAGTAAATCGTCAAATTGTTGCCGTTGTAAATTTTCCAAAGAAACAAATTGG
TAGAAAATTTATGTCTGAATGTTTAGTATTAGGTGCATTAGGTAAAGAAGAAGGAGATGT
AATTTTATTATCACCAGATTCAAAAATTGAAAATGGTTTAAAAATTAGTTAATTATAAAA
TAAAATTAAAAATATTAAAAAAAAAAXXXXXXXXXXGGAAGATAAAAGAGATTTAAAATG
GGAGGAATTTGAAAGAGTGGATATGAGAGTTGGAACAATAATCCAAGTTGATGATTTCCC
AGAAGCAAGAAAACCTGCCTACCAATTAACCATTGATTTTGGTGAAACCATTGGAATTCG
TAAATCCTCGGCACAAATTACAAAGAGATATAATAAAGAAGATTTAGTAAATCGTCAAAT
TGTTGCCGTTGTAAATTTTCCAAAGAAACAAATTGGTAGAAAATTTATGTCTGAATGTTT
AGTATTAGGTGCATTAGGTAAAGAAGAAGGAGATGTAATTTTATTATCACCAGATTCAAA
AATTAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
kikei*ngrnlkewi*eleq*sklmisqkqenlptn*plilvkplefvnprhklqrdiik
ki**ivkllpl*ifqrnklvenlclnv*y*vh*vkkkem*fyyhqiqklkmv*KLVNYKI
KLKILKKK---

---EDKRDLKWEEFERVDMRVGTIIQVDDFPEARKPAYQLTIDFGETIGIRKSSAQITKR
YNKEDLVNRQIVAVVNFPKKQIGRKFMSECLVLGALGKEEGDVILLSPDSKI
Translated Amino Acid sequence (All Frames) 
Frame A:
gr*krfkmggi*ksgyeswnnnps**fprskktclpinh*fw*nhwns*ilgtnykei**
rrfskssnccrckfsketnw*kiyv*mfsircir*rrrrcnfiitrfkn*kwfkn*liik
*n*ky*kk---

---gr*krfkmggi*ksgyeswnnnps**fprskktclpinh*fw*nhwns*ilgtnyke
i**rrfskssnccrckfsketnw*kiyv*mfsircir*rrrrcnfiitrfkn*

Frame B:
edkrdlkweefervdmrvgtiiqvddfpearkpayqltidfgetigirkssaqitkrynk
edlvnrqivavvnfpkkqigrkfmseclvlgalgkeegdvillspdskienglkis*l*n
kiknikkk---

---EDKRDLKWEEFERVDMRVGTIIQVDDFPEARKPAYQLTIDFGETIGIRKSSAQITKR
YNKEDLVNRQIVAVVNFPKKQIGRKFMSECLVLGALGKEEGDVILLSPDSKI

Frame C:
kikei*ngrnlkewi*eleq*sklmisqkqenlptn*plilvkplefvnprhklqrdiik
ki**ivkllpl*ifqrnklvenlclnv*y*vh*vkkkem*fyyhqiqklkmv*KLVNYKI
KLKILKKK---

---kikei*ngrnlkewi*eleq*sklmisqkqenlptn*plilvkplefvnprhklqrd
iikki**ivkllpl*ifqrnklvenlclnv*y*vh*vkkkem*fyyhqiqkl
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSD518 (VSD518Q) /CSM/VS/VSD5-A/VSD518Q.Seq.d/                        654   0.0
VSE768 (VSE768Q) /CSM/VS/VSE7-C/VSE768Q.Seq.d/                        650   0.0
VSE478 (VSE478Q) /CSM/VS/VSE4-D/VSE478Q.Seq.d/                        650   0.0
VSC535 (VSC535Q) /CSM/VS/VSC5-B/VSC535Q.Seq.d/                        650   0.0
VSK420 (VSK420Q) /CSM/VS/VSK4-A/VSK420Q.Seq.d/                        642   0.0
CHC664 (CHC664Q) /CSM/CH/CHC6-C/CHC664Q.Seq.d/                         36   0.72
VSC688 (VSC688Q) /CSM/VS/VSC6-D/VSC688Q.Seq.d/                         34   2.8
VHQ185 (VHQ185Q) /CSM/VH/VHQ1-D/VHQ185Q.Seq.d/                         34   2.8
VHO557 (VHO557Q) /CSM/VH/VHO5-C/VHO557Q.Seq.d/                         34   2.8
VHI243 (VHI243Q) /CSM/VH/VHI2-B/VHI243Q.Seq.d/                         34   2.8
own update 2003. 1. 9
Homology vs DNA 

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

AC105306|AC105306.13 Bos taurus clone rp42-158g13, complete sequence.    40  0.15  3
CB820000|CB820000.1 EST 992 Green Apricot Fruit Lambda Zap II Library Prunus armeniaca cDNA clone ba004l07 3', mRNA sequence.    34  0.54  2
AV848317|AV848317.1 Ciona intestinalis cDNA, clone:rciad11l03, 3' end, single read.    34  0.56  2
AV848322|AV848322.1 Ciona intestinalis cDNA, clone:rciad11l11, 3' end, single read.    34  0.56  2
AV959064|AV959064.1 Ciona intestinalis cDNA, clone:ciad11l03, 5' end, single read.    34  0.58  2
U23453|U23453.2 Caenorhabditis elegans cosmid B0252, complete sequence.    46  0.61  1
AV959071|AV959071.1 Ciona intestinalis cDNA, clone:ciad11l11, 5' end, single read.    34  0.62  2
BZ034402|BZ034402.1 oei78a06.g1 B.oleracea002 Brassica oleracea genomic, DNA sequence.    34  0.63  2
L47649|L47649.1 Plasmodium falciparum GBP130 gene, intron.        34  0.94  2
BM415261|BM415261.1 OP20333 Mixed Stage EST's from Globodera pallida, the potato cyst nematode Globodera pallida cDNA similar to Homology:(blast score <=3D 1e-5) Mus musculus ribosomal protein S18 (Rps18), mRNA, mRNA sequence.    34  1.0  2
dna update 2003. 8.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CP000685_2186(CP000685|pid:none) Flavobacterium johnsoniae UW101...   184   3e-45
CU207366_2499(CU207366|pid:none) Gramella forsetii KT0803 comple...   143   6e-33
CP001357_359(CP001357|pid:none) Brachyspira hyodysenteriae WA1, ...   124   2e-27
BA000028_3174(BA000028|pid:none) Oceanobacillus iheyensis HTE831...   124   2e-27
CP000356_1213(CP000356|pid:none) Sphingopyxis alaskensis RB2256,...   124   3e-27
CP000758_1626(CP000758|pid:none) Ochrobactrum anthropi ATCC 4918...   124   4e-27
CP001389_2243(CP001389|pid:none) Rhizobium sp. NGR234, complete ...   122   9e-27
CP000708_1353(CP000708|pid:none) Brucella ovis ATCC 25840 chromo...   122   9e-27
CP000738_2219(CP000738|pid:none) Sinorhizobium medicae WSM419, c...   122   1e-26
CP000390_2134(CP000390|pid:none) Mesorhizobium sp. BNC1, complet...   120   4e-26
protein update 2009. 7.29
PSORT 

 psg: 0.27  gvh: 0.36  alm: 0.41  top: 0.53  tms: 0.00  mit: 0.29  mip: 0.00
 nuc: 0.12  erl: 0.00  erm: 0.20  pox: 0.30  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
	 16.0 %: nuclear
	 12.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: peroxisomal

>> prediction for VSD518 is cyt
5' end seq. ID VSD518F
5' end seq. 
>VSD518F.Seq
GGAAGATAAAAGAGATTTAAAATGGGAGGAATTTGAAAGAGTGGATATGAGAGTTGGAAC
AATAATCCAAGTTGATGATTTCCCAGAAGCAAGAAAACCTGCCTACCAATTAACCATTGA
TTTTGGTGAAACCATTGGAATTCGTAAATCCTCGGCACAAATTACAAAGAGATATAATAA
AGAAGATTTAGTAAATCGTCAAATTGTTGCCGTTGTAAATTTTCCAAAGAAACAAATTGG
TAGAAAATTTATGTCTGAATGTTTAGTATTAGGTGCATTAGGTAAAGAAGAAGGAGATGT
AATTTTATTATCACCAGATTCAAAAATTGAAAATGGTTTAAAAATTAGTTAATTATAAAA
TAAAATTAAAAATATTAAAAAAAAAA----------
Length of 5' end seq. 386
3' end seq. ID VSD518Z
3' end seq. 
>VSD518Z.Seq
----------GGAAGATAAAAGAGATTTAAAATGGGAGGAATTTGAAAGAGTGGATATGA
GAGTTGGAACAATAATCCAAGTTGATGATTTCCCAGAAGCAAGAAAACCTGCCTACCAAT
TAACCATTGATTTTGGTGAAACCATTGGAATTCGTAAATCCTCGGCACAAATTACAAAGA
GATATAATAAAGAAGATTTAGTAAATCGTCAAATTGTTGCCGTTGTAAATTTTCCAAAGA
AACAAATTGGTAGAAAATTTATGTCTGAATGTTTAGTATTAGGTGCATTAGGTAAAGAAG
AAGGAGATGTAATTTTATTATCACCAGATTCAAAAATTAA
Length of 3' end seq. 330
Connected seq. ID VSD518P
Connected seq. 
>VSD518P.Seq
GGAAGATAAAAGAGATTTAAAATGGGAGGAATTTGAAAGAGTGGATATGAGAGTTGGAAC
AATAATCCAAGTTGATGATTTCCCAGAAGCAAGAAAACCTGCCTACCAATTAACCATTGA
TTTTGGTGAAACCATTGGAATTCGTAAATCCTCGGCACAAATTACAAAGAGATATAATAA
AGAAGATTTAGTAAATCGTCAAATTGTTGCCGTTGTAAATTTTCCAAAGAAACAAATTGG
TAGAAAATTTATGTCTGAATGTTTAGTATTAGGTGCATTAGGTAAAGAAGAAGGAGATGT
AATTTTATTATCACCAGATTCAAAAATTGAAAATGGTTTAAAAATTAGTTAATTATAAAA
TAAAATTAAAAATATTAAAAAAAAAA----------GGAAGATAAAAGAGATTTAAAATG
GGAGGAATTTGAAAGAGTGGATATGAGAGTTGGAACAATAATCCAAGTTGATGATTTCCC
AGAAGCAAGAAAACCTGCCTACCAATTAACCATTGATTTTGGTGAAACCATTGGAATTCG
TAAATCCTCGGCACAAATTACAAAGAGATATAATAAAGAAGATTTAGTAAATCGTCAAAT
TGTTGCCGTTGTAAATTTTCCAAAGAAACAAATTGGTAGAAAATTTATGTCTGAATGTTT
AGTATTAGGTGCATTAGGTAAAGAAGAAGGAGATGTAATTTTATTATCACCAGATTCAAA
AATTAA
Length of connected seq. 716
Full length Seq ID -
Full length Seq. -
Length of full length seq. -