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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
VSD872
Library VS
(Link to library)
Clone ID VSD872
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U05906-1
Original site URL
Representative seq. ID VSD872P
(Link to Original site)
Representative DNA sequence 
>VSD872 (VSD872Q) /CSM/VS/VSD8-C/VSD872Q.Seq.d/
AAATAATTAATTATTTCATTTATTTATTTATTAATTAATTAATTATAAAAAAAATAGAAA
AAAAAAAXXXXXXXXXXTTTTATTAAAAAGTGATAGTGATTTTCATATGAATGGATTCAT
TTGGGGTCATTTGGCAGCAAAACATGTATATTCTAAATTAAATAGTAAATTGAAATCATT
TGAACCAAAATCCAGATCAGAAATTAATGAAATGATTAAAGCAATTACAGCAGTGACCGA
ATTCATAGAAGTGCATTACTACCATGAAGAAGAGATAGCATGGAAGTTTTTAATTGAGCA
ACAGCAATGTCTATCGGAACCATTATTGACCATTGTCAAACCTCAACATACTCAATGGAC
TGAGATTAATAATGAAATGAAGGATTTGGTGAAATCGTTGACTGAAAACCAAGAAATTAA
AGATAAATCATCAAATGGATGGACTGAATCAATTTCAAAAGTGAAAGAAATCCTTCAAAA
ATTGACAGCTATGGTTTATAAAAGTTTTTATGATGAAGAAAGAATTATTATACCTGTTGT
TTTAAGTTCAATCCCAAAGAGTAAACAAAATAAATTGGGTGAGAAAATGAATGAAACTAT
GAAAAATGCACCAACTTCTAAATTTGTTTTAGGTGCAATCTTGGATGTTTGCAAAACTAA
TAAAG
sequence update 2001. 3.22
Translated Amino Acid sequence 
nn*lfhlfiy*LINYKKNRKKK---

---LLKSDSDFHMNGFIWGHLAAKHVYSKLNSKLKSFEPKSRSEINEMIKAITAVTEFIE
VHYYHEEEIAWKFLIEQQQCLSEPLLTIVKPQHTQWTEINNEMKDLVKSLTENQEIKDKS
SNGWTESISKVKEILQKLTAMVYKSFYDEERIIIPVVLSSIPKSKQNKLGEKMNETMKNA
PTSKFVLGAILDVCKTNK
Translated Amino Acid sequence (All Frames) 
Frame A:
k*liisfiyllin*l*kk*kkk---

---fy*kvivifi*mdsfgviwqqnmyiln*ivn*nhlnqnpdqklmk*lkqlqq*pns*
kcittmkkr*hgsf*lsnsnvyrnhy*plsnlnilnglrlimk*riw*nr*lktkklkin
hqmdglnqfqk*kksfkn*qlwfikvfmmkkellyllf*vqsqrvnkinwvrk*mkl*km
hqllnlf*vqswmfaklik

Frame B:
nn*lfhlfiy*LINYKKNRKKK---

---fikk***fsyewihlgsfgsktcif*ik**ieii*tkiqirn**nd*snyssdrihr
sallp*rrdsmevfn*atamsigtiidhcqtstysmd*d***negfgeivd*kprn*r*i
ikwmd*infksernpskidsygl*kfl**rknyytccfkfnpke*tk*ig*ene*nyekc
tnf*icfrcnlgclqn**

Frame C:
iinyfiylfin*liikkiekk---

---LLKSDSDFHMNGFIWGHLAAKHVYSKLNSKLKSFEPKSRSEINEMIKAITAVTEFIE
VHYYHEEEIAWKFLIEQQQCLSEPLLTIVKPQHTQWTEINNEMKDLVKSLTENQEIKDKS
SNGWTESISKVKEILQKLTAMVYKSFYDEERIIIPVVLSSIPKSKQNKLGEKMNETMKNA
PTSKFVLGAILDVCKTNK
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSD872 (VSD872Q) /CSM/VS/VSD8-C/VSD872Q.Seq.d/                       1166   0.0
SSM642 (SSM642Q) /CSM/SS/SSM6-B/SSM642Q.Seq.d/                       1098   0.0
VSF733 (VSF733Q) /CSM/VS/VSF7-B/VSF733Q.Seq.d/                       1007   0.0
VSG781 (VSG781Q) /CSM/VS/VSG7-D/VSG781Q.Seq.d/                        464   e-130
VSI503 (VSI503Q) /CSM/VS/VSI5-A/VSI503Q.Seq.d/                        440   e-122
VSG512 (VSG512Q) /CSM/VS/VSG5-A/VSG512Q.Seq.d/                         56   7e-07
VSE786 (VSE786Q) /CSM/VS/VSE7-D/VSE786Q.Seq.d/                         56   7e-07
VSE130 (VSE130Q) /CSM/VS/VSE1-B/VSE130Q.Seq.d/                         56   7e-07
VSD491 (VSD491Q) /CSM/VS/VSD4-D/VSD491Q.Seq.d/                         56   7e-07
VFL255 (VFL255Q) /CSM/VF/VFL2-C/VFL255Q.Seq.d/                         52   1e-05
own update 2004.12.25
Homology vs DNA 

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

BX296532|BX296532.6 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-281C19.    60  6e-06  4
BH798009|BH798009.1 1008079C02.y1 1008 - RescueMu Grid I Zea mays genomic, DNA sequence.    60  4e-05  1
AC139589|AC139589.1 Rattus norvegicus clone CH230-392N20, *** SEQUENCING IN PROGRESS ***, 37 unordered pieces.    50  1e-04  3
BX537292|BX537292.3 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-213E17.    50  1e-04  4
AQ986570|AQ986570.1 RPCI-23-326I16.TV RPCI-23 Mus musculus genomic clone RPCI-23-326I16 , DNA sequence.    58  1e-04  1
BX004830|BX004830.4 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-159I8.    58  1e-04  1
AC095790|AC095790.4 Rattus norvegicus clone CH230-9M12, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    58  1e-04  1
X17012|X17012.1 Rat IGFII gene for insulin-like growth factor II.    42  4e-04  3
AJ011856|AJ011856.1 Saccharomyces cerevisiae complete mitochondrial genome.    56  6e-04  5
AC113716|AC113716.5 Rattus norvegicus clone CH230-57N12, *** SEQUENCING IN PROGRESS ***, 3 unordered pieces.    56  6e-04  1
dna update 2003. 8.22
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

T08700(T08700)hypothetical protein DKFZp564G013.1 - human (fragm...    44   0.004
AY354204_1(AY354204|pid:none) Homo sapiens retinoic acid induced...    44   0.004
AF155135_1(AF155135|pid:none) Homo sapiens novel retinal pigment...    44   0.004
AY317139_1(AY317139|pid:none) Homo sapiens RAI14 isoform mRNA, c...    44   0.004
AL050011_1(AL050011|pid:none) Homo sapiens mRNA; cDNA DKFZp564G0...    44   0.004
AB384179_1(AB384179|pid:none) Synthetic construct DNA, clone: pF...    43   0.007
CP000764_2444(CP000764|pid:none) Bacillus cereus subsp. cytotoxi...    43   0.007
AB169005_1(AB169005|pid:none) Macaca fascicularis testis cDNA, c...    42   0.021
BA000016_216(BA000016|pid:none) Clostridium perfringens str. 13 ...    41   0.036
CP000312_189(CP000312|pid:none) Clostridium perfringens SM101, c...    39   0.11
protein update 2009. 7.30
PSORT 

 psg: 0.58  gvh: 0.40  alm: 0.46  top: 0.53  tms: 0.00  mit: 0.30  mip: 0.03
 nuc: 0.04  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 

	 56.0 %: cytoplasmic
	 20.0 %: mitochondrial
	 20.0 %: nuclear
	  4.0 %: peroxisomal

>> prediction for VSD872 is cyt
5' end seq. ID VSD872F
5' end seq. 
>VSD872F.Seq
AAATAATTAATTATTTCATTTATTTATTTATTAATTAATTAATTATAAAAAAAATAGAAA
AAAAAAA----------
Length of 5' end seq. 67
3' end seq. ID VSD872Z
3' end seq. 
>VSD872Z.Seq
----------TTTTATTAAAAAGTGATAGTGATTTTCATATGAATGGATTCATTTGGGGT
CATTTGGCAGCAAAACATGTATATTCTAAATTAAATAGTAAATTGAAATCATTTGAACCA
AAATCCAGATCAGAAATTAATGAAATGATTAAAGCAATTACAGCAGTGACCGAATTCATA
GAAGTGCATTACTACCATGAAGAAGAGATAGCATGGAAGTTTTTAATTGAGCAACAGCAA
TGTCTATCGGAACCATTATTGACCATTGTCAAACCTCAACATACTCAATGGACTGAGATT
AATAATGAAATGAAGGATTTGGTGAAATCGTTGACTGAAAACCAAGAAATTAAAGATAAA
TCATCAAATGGATGGACTGAATCAATTTCAAAAGTGAAAGAAATCCTTCAAAAATTGACA
GCTATGGTTTATAAAAGTTTTTATGATGAAGAAAGAATTATTATACCTGTTGTTTTAAGT
TCAATCCCAAAGAGTAAACAAAATAAATTGGGTGAGAAAATGAATGAAACTATGAAAAAT
GCACCAACTTCTAAATTTGTTTTAGGTGCAATCTTGGATGTTTGCAAAACTAATAAAG
Length of 3' end seq. 588
Connected seq. ID VSD872P
Connected seq. 
>VSD872P.Seq
AAATAATTAATTATTTCATTTATTTATTTATTAATTAATTAATTATAAAAAAAATAGAAA
AAAAAAA----------TTTTATTAAAAAGTGATAGTGATTTTCATATGAATGGATTCAT
TTGGGGTCATTTGGCAGCAAAACATGTATATTCTAAATTAAATAGTAAATTGAAATCATT
TGAACCAAAATCCAGATCAGAAATTAATGAAATGATTAAAGCAATTACAGCAGTGACCGA
ATTCATAGAAGTGCATTACTACCATGAAGAAGAGATAGCATGGAAGTTTTTAATTGAGCA
ACAGCAATGTCTATCGGAACCATTATTGACCATTGTCAAACCTCAACATACTCAATGGAC
TGAGATTAATAATGAAATGAAGGATTTGGTGAAATCGTTGACTGAAAACCAAGAAATTAA
AGATAAATCATCAAATGGATGGACTGAATCAATTTCAAAAGTGAAAGAAATCCTTCAAAA
ATTGACAGCTATGGTTTATAAAAGTTTTTATGATGAAGAAAGAATTATTATACCTGTTGT
TTTAAGTTCAATCCCAAAGAGTAAACAAAATAAATTGGGTGAGAAAATGAATGAAACTAT
GAAAAATGCACCAACTTCTAAATTTGTTTTAGGTGCAATCTTGGATGTTTGCAAAACTAA
TAAAG
Length of connected seq. 655
Full length Seq ID -
Full length Seq. -
Length of full length seq. -