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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
VSH879
Library VS
(Link to library)
Clone ID VSH879
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U09808-1
Original site URL
Representative seq. ID VSH879P
(Link to Original site)
Representative DNA sequence 
>VSH879 (VSH879Q) /CSM/VS/VSH8-D/VSH879Q.Seq.d/
CCAAAACAAAAAAAAATGAATAAAACATTAAAATTATTATCAACATCAAAACAAGTTAGA
AATATATATACAACAACAACATTTTTAACTAGACAACCACAACAAAGATCAATACAATTT
TTAAACTCAAGATCATTTCATTCATCAAATCCAACATTTATATTTGAAAATGTTTTGGGT
AAAATTAAAAATGTTTTTTCTAGTGATAAAGATAAAACTAAAGAATACCCAACAAATGAA
AAGGATTTAGAGGATAAAGCAAATACAAATTTAAAAACACAATCACAATCACAACCAAAA
GCTATTGAAAAAACCAAAGAACAAAGAGATCATGAGAATGAAGAATACCAAAAGTTATXX
XXXXXXXXACCNTCTTTNTTAAAAAAAAANGCTGTAAANAATTANAGTTGAAGTTGCCNA
ACTTTCCCNAAAANAAAANAGAAAANATTTATNAANATAAAANGNTTATTTAAANAAATA
AAAAAAAAAAAAAC
sequence update 2001. 3.22
Translated Amino Acid sequence 
PKQKKMNKTLKLLSTSKQVRNIYTTTTFLTRQPQQRSIQFLNSRSFHSSNPTFIFENVLG
KIKNVFSSDKDKTKEYPTNEKDLEDKANTNLKTQSQSQPKAIEKTKEQRDHENEEYQKL-
--

---TXFXKKKXCKXLXLKLPNFPXXKXEXIYXXKXXI*xnkkkkn
Translated Amino Acid sequence (All Frames) 
Frame A:
PKQKKMNKTLKLLSTSKQVRNIYTTTTFLTRQPQQRSIQFLNSRSFHSSNPTFIFENVLG
KIKNVFSSDKDKTKEYPTNEKDLEDKANTNLKTQSQSQPKAIEKTKEQRDHENEEYQKL-
--

---TXFXKKKXCKXLXLKLPNFPXXKXEXIYXXKXXI*xnkkkkn

Frame B:
qnkkk*ikh*nyyqhqnkleiyiqqqhf*ldnhnkdqynf*tqdhfihqiqhlylkmfwv
klkmfflvikiklkntqqmkri*rikqiqi*khnhnhnqkllkkpknkeimrmkntksy-
--

---psxlkkxavxnxs*scxtfpkxkxkxfxxikxlfkxikkkk

Frame C:
ktkkne*nikiiinikts*kyiynnnifn*ttttkintifklkiisfiksniyi*kcfg*
n*kcff***r*n*ripnk*kgfrg*skykfkntitittksy*knqrtkrs*e*ripkv--
-

---xlx*kkxl*xixvevaxlsxkxxrkxlxx*xxylxk*kkkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSH879 (VSH879Q) /CSM/VS/VSH8-D/VSH879Q.Seq.d/                        678   0.0
VSI182 (VSI182Q) /CSM/VS/VSI1-D/VSI182Q.Seq.d/                         40   0.031
VHQ147 (VHQ147Q) /CSM/VH/VHQ1-B/VHQ147Q.Seq.d/                         40   0.031
VHJ856 (VHJ856Q) /CSM/VH/VHJ8-C/VHJ856Q.Seq.d/                         40   0.031
VHG118 (VHG118Q) /CSM/VH/VHG1-A/VHG118Q.Seq.d/                         40   0.031
VHF412 (VHF412Q) /CSM/VH/VHF4-A/VHF412Q.Seq.d/                         40   0.031
VHC295 (VHC295Q) /CSM/VH/VHC2-D/VHC295Q.Seq.d/                         40   0.031
SSJ550 (SSJ550Q) /CSM/SS/SSJ5-C/SSJ550Q.Seq.d/                         40   0.031
SSF731 (SSF731Q) /CSM/SS/SSF7-B/SSF731Q.Seq.d/                         40   0.031
SSC442 (SSC442Q) /CSM/SS/SSC4-B/SSC442Q.Seq.d/                         40   0.031
own update 2003.10.28
Homology vs DNA 

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

(AU268115) Dictyostelium discoideum vegetative cDNA clone:VS...   474   e-141  2
(AC116920) Dictyostelium discoideum chromosome 2 map 4415041...   379   e-133  4
(AU268116) Dictyostelium discoideum vegetative cDNA clone:VS...    58   3e-04  1
(FG283397) 1108770600507 New World Screwworm Egg 9261 ESTs C...    38   0.012  2
(FG301147) 1108799260169 New World Screwworm Larvae 9387 EST...    38   0.013  2
(FG297431) 1108793286826 New World Screwworm Larvae 9387 EST...    38   0.013  2
(AC115612) Dictyostelium discoideum chromosome 2 map 6245135...    34   0.049  8
(EH015465) USDA-FP_188063 Lysiphlebus testaceipes adult whol...    32   0.10   4
(AC116330) Dictyostelium discoideum chromosome 2 map 3191214...    36   0.20   7
(BP105501) Bos taurus cDNA, clone: ORCS27124, 3' end.              34   0.20   3
dna update 2009. 7. 2
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC116920_17(AC116920|pid:none) Dictyostelium discoideum chromoso...   228   4e-59
AL844506_217(AL844506|pid:none) Plasmodium falciparum 3D7 chromo...    39   0.048
CP000932_541(CP000932|pid:none) Campylobacter lari RM2100, compl...    39   0.062
E71616(E71616)hypothetical protein PFB0365w - malaria parasite (...    39   0.082
AP003316_24(AP003316|pid:none) Oryza sativa Japonica Group genom...    37   0.31
AP008207_3347(AP008207|pid:none) Oryza sativa (japonica cultivar...    37   0.31
AB360550_1(AB360550|pid:none) Oryza sativa Japonica Group FSM mR...    37   0.31
CP000764_2830(CP000764|pid:none) Bacillus cereus subsp. cytotoxi...    36   0.41
AE014851_17(AE014851|pid:none) Plasmodium falciparum 3D7 chromos...    35   0.69
AE017321_738(AE017321|pid:none) Wolbachia endosymbiont strain TR...    35   0.90
protein update 2009. 3.24
PSORT 

 psg: 0.73  gvh: 0.33  alm: 0.52  top: 0.53  tms: 0.00  mit: 0.64  mip: 0.08
 nuc: 0.06  erl: 0.00  erm: 0.20  pox: 0.00  px2: 0.00  vac: 0.33  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 

	 84.0 %: mitochondrial
	 16.0 %: nuclear

>> prediction for VSH879 is mit
5' end seq. ID VSH879F
5' end seq. 
>VSH879F.Seq
CCAAAACAAAAAAAAATGAATAAAACATTAAAATTATTATCAACATCAAAACAAGTTAGA
AATATATATACAACAACAACATTTTTAACTAGACAACCACAACAAAGATCAATACAATTT
TTAAACTCAAGATCATTTCATTCATCAAATCCAACATTTATATTTGAAAATGTTTTGGGT
AAAATTAAAAATGTTTTTTCTAGTGATAAAGATAAAACTAAAGAATACCCAACAAATGAA
AAGGATTTAGAGGATAAAGCAAATACAAATTTAAAAACACAATCACAATCACAACCAAAA
GCTATTGAAAAAACCAAAGAACAAAGAGATCATGAGAATGAAGAATACCAAAAGTTAT--
--------
Length of 5' end seq. 358
3' end seq. ID VSH879Z
3' end seq. 
>VSH879Z.Seq
----------ACCNTCTTTNTTAAAAAAAAANGCTGTAAANAATTANAGTTGAAGTTGCC
NAACTTTCCCNAAAANAAAANAGAAAANATTTATNAANATAAAANGNTTATTTAAANAAA
TAAAAAAAAAAAAAAC
Length of 3' end seq. 126
Connected seq. ID VSH879P
Connected seq. 
>VSH879P.Seq
CCAAAACAAAAAAAAATGAATAAAACATTAAAATTATTATCAACATCAAAACAAGTTAGA
AATATATATACAACAACAACATTTTTAACTAGACAACCACAACAAAGATCAATACAATTT
TTAAACTCAAGATCATTTCATTCATCAAATCCAACATTTATATTTGAAAATGTTTTGGGT
AAAATTAAAAATGTTTTTTCTAGTGATAAAGATAAAACTAAAGAATACCCAACAAATGAA
AAGGATTTAGAGGATAAAGCAAATACAAATTTAAAAACACAATCACAATCACAACCAAAA
GCTATTGAAAAAACCAAAGAACAAAGAGATCATGAGAATGAAGAATACCAAAAGTTAT--
--------ACCNTCTTTNTTAAAAAAAAANGCTGTAAANAATTANAGTTGAAGTTGCCNA
ACTTTCCCNAAAANAAAANAGAAAANATTTATNAANATAAAANGNTTATTTAAANAAATA
AAAAAAAAAAAAAC
Length of connected seq. 484
Full length Seq ID -
Full length Seq. -
Length of full length seq. -