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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
VSJ470
Library VS
(Link to library)
Clone ID VSJ470
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U01513-1
Original site URL
Representative seq. ID VSJ470P
(Link to Original site)
Representative DNA sequence 
>VSJ470 (VSJ470Q) /CSM/VS/VSJ4-C/VSJ470Q.Seq.d/
CCCGCGTCCGGAAATACAAATACAACTTCTATCTCTTCAGATTATCTTCTCAACAAAAGA
GTAACAACAATGACAGTGATGATAGTGATGATGATAATGAAAAATGAAGGTGATGATGAC
AATATTATTAGAGTTCCAGAATTATCTTGTATTCAATGTAAAGGTCATTATTCTAAAAAT
ACTATCGAAAGTCAATTAGTTGAAATCATTCAAAGACGTTCATTATCTTATCAATTACAA
GATTTAAGATGCTCAAAATGTAATGATGTTAAATCTGATAACCTTGGTGATATTTGTCCA
CAATGTTCTGGTCAATGGGAATGTACTCAATCAAATAATTTATTTTCTAAAGATTTAATT
ATCTTTAAAAGTATTGCAGAATATCATAATTTTGAATGGTTAGGTGAGACTGTTGATTCA
TTATCCAAATTTATTTAATTGTACATATAAAATAAAAAATAAAAAAACTAAAAATTAAAA
AAATAAAAAAAAACTTTATTTTAAAAAAAAAAXXXXXXXXXXGAAATACAAATACAACTT
CTATCTCTTCAAGATTATCTTCTCAACAAAAGAGTAACAACAATGACAGTGATGATAGTG
ATGATGATAATGAAAAATGAAGGTGATGATGACAATATTATTAGAGTTCCAGAATTATCT
TGTATTCAATGTAAAGGTCATTATTCTAAAAATACTATCGAAAGTCAATTAGTTGAAATC
ATTCAAAGACGTTCATTATCTTATCAATTACAAGATTTAAGATGCTCAAAATGTAATGAT
GTTAAATCTGATAACCTTGGTGATATTTGTCCACAATGTTCTGGTCAATGGGAATGTACT
CAATCAAATAATTTATTTTCTAAAGATTTAATTATCTTTAAAAGTATTGCAGAATATCAT
AATTTTGAATGGTTAGGTGAGACTGTTGATTCATTATCCAAATTTATTTAATTGTACATA
TAAAATAAAAAATAAAAAAACTAAAAATTAAAAAAATAAAAAAAAACT
sequence update 2001. 3.22
Translated Amino Acid sequence 
rvrkykynfylfrlssqqksnnndsddsdddnek*r***qyy*ssriilysm*rslf*ky
yrksis*nhsktfiilsitrfkmlkm**c*i**pw*ylstmfwsmgmysik*fif*rfny
l*kycris*f*mvr*dc*fiiqiylivhik*KIKKLKIKKIKKNFILKKK---

---EIQIQLLSLQDYLLNKRVTTMTVMIVMMIMKNEGDDDNIIRVPELSCIQCKGHYSKN
TIESQLVEIIQRRSLSYQLQDLRCSKCNDVKSDNLGDICPQCSGQWECTQSNNLFSKDLI
IFKSIAEYHNFEWLGETVDSLSKFI*lyi*nkk*kn*klkk*kkt
Translated Amino Acid sequence (All Frames) 
Frame A:
pasgntnttsissdyllnkrvttmtvmivmmimknegdddniirvpelsciqckghyskn
tiesqlveiiqrrslsyqlqdlrcskcndvksdnlgdicpqcsgqwectqsnnlfskdli
ifksiaeyhnfewlgetvdslskfi*lyi*nkk*kn*klkk*kktlf*kk---

---EIQIQLLSLQDYLLNKRVTTMTVMIVMMIMKNEGDDDNIIRVPELSCIQCKGHYSKN
TIESQLVEIIQRRSLSYQLQDLRCSKCNDVKSDNLGDICPQCSGQWECTQSNNLFSKDLI
IFKSIAEYHNFEWLGETVDSLSKFI*lyi*nkk*kn*klkk*kkt

Frame B:
prpeiqiqllslqiifstke*qq*q********kmkvmmtillefqnylvfnvkviilki
lskvn*lksfkdvhylinyki*daqnvmmlnlitlvifvhnvlvngnvlnqiiyflki*l
slkvlqniiilng*vrllihypnlfnctykiknkktkn*knkkklyfkkk---

---kykynfylfkiifstke*qq*q********kmkvmmtillefqnylvfnvkviilki
lskvn*lksfkdvhylinyki*daqnvmmlnlitlvifvhnvlvngnvlnqiiyflki*l
slkvlqniiilng*vrllihypnlfnctykiknkktkn*knkkk

Frame C:
rvrkykynfylfrlssqqksnnndsddsdddnek*r***qyy*ssriilysm*rslf*ky
yrksis*nhsktfiilsitrfkmlkm**c*i**pw*ylstmfwsmgmysik*fif*rfny
l*kycris*f*mvr*dc*fiiqiylivhik*KIKKLKIKKIKKNFILKKK---

---ntnttsissrlssqqksnnndsddsdddnek*r***qyy*ssriilysm*rslf*ky
yrksis*nhsktfiilsitrfkmlkm**c*i**pw*ylstmfwsmgmysik*fif*rfny
l*kycris*f*mvr*dc*fiiqiylivhik*kikklkikkikkn
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ470 (VSJ470Q) /CSM/VS/VSJ4-C/VSJ470Q.Seq.d/                        650   0.0
SSA552 (SSA552Q) /CSM/SS/SSA5-C/SSA552Q.Seq.d/                        650   0.0
SSM795 (SSM795Q) /CSM/SS/SSM7-D/SSM795Q.Seq.d/                         38   0.25
SSI651 (SSI651Q) /CSM/SS/SSI6-C/SSI651Q.Seq.d/                         38   0.25
SSF864 (SSF864Q) /CSM/SS/SSF8-C/SSF864Q.Seq.d/                         38   0.25
VHG871 (VHG871Q) /CSM/VH/VHG8-C/VHG871Q.Seq.d/                         36   1.0
VHC515 (VHC515Q) /CSM/VH/VHC5-A/VHC515Q.Seq.d/                         36   1.0
SHH566 (SHH566Q) /CSM/SH/SHH5-C/SHH566Q.Seq.d/                         36   1.0
VSA605 (VSA605Q) /CSM/VS/VSA6-A/VSA605Q.Seq.d/                         34   4.0
VHQ472 (VHQ472Q) /CSM/VH/VHQ4-C/VHQ472Q.Seq.d/                         34   4.0
own update 2004.12.25
Homology vs DNA 

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

BX294098|BX294098.4 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-254P12.    48  0.21  1
BX294095|BX294095.4 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-248L17.    48  0.21  2
AJ277431|AJ277431.1 Megaselia scalaris retrotransposon TROMB-Ms2.    36  0.43  2
AJ277430|AJ277430.1 Megaselia scalaris retrotransposon TROMB-Ms1.    36  0.44  2
AC105921|AC105921.5 Homo sapiens chromosome 2 clone RP11-541F21, complete sequence.    50  0.48  8
AC100585|AC100585.1 Mus musculus clone RP23-156J21, LOW-PASS SEQUENCE SAMPLING.    36  0.64  4
BH139088|BH139088.1 ENTOY62TF Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    30  0.74  3
BH136321|BH136321.1 ENTNX05TR Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    30  0.78  3
AL590785|AL590785.7 Human DNA sequence from clone RP11-321C1 on chromosome 6.    46  0.83  2
AC055116|AC055116.3 Homo sapiens chromosome 6 clone RP11-161I20, WORKING DRAFT SEQUENCE, 6 unordered pieces.    46  0.83  1
dna update 2003. 7.19
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54RD4) RecName: Full=DNA polymerase epsilon catalytic subunit ...   241   4e-62
BC093432_1(BC093432|pid:none) Danio rerio novel protein similar ...    77   7e-13
(Q6CUS7) RecName: Full=DNA polymerase epsilon catalytic subunit ...    74   6e-12
AK171004_1(AK171004|pid:none) Mus musculus NOD-derived CD11c +ve...    73   1e-11
BC048166_1(BC048166|pid:none) Mus musculus polymerase (DNA direc...    73   1e-11
AK143509_1(AK143509|pid:none) Mus musculus 8 cells embryo 8 cell...    73   1e-11
AF123502_1(AF123502|pid:none) Mus musculus DNA polymerase epsilo...    73   1e-11
BC021559_1(BC021559|pid:none) Homo sapiens polymerase (DNA direc...    69   2e-10
AY273166_1(AY273166|pid:none) Homo sapiens polymerase (DNA direc...    69   2e-10
AK025087_1(AK025087|pid:none) Homo sapiens cDNA: FLJ21434 fis, c...    69   2e-10
protein update 2009. 3.25
PSORT 

 psg: 0.44  gvh: 0.26  alm: 0.39  top: 0.53  tms: 0.00  mit: 0.27  mip: 0.00
 nuc: 0.06  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
	 28.0 %: nuclear
	 12.0 %: mitochondrial
	  4.0 %: cytoskeletal

>> prediction for VSJ470 is cyt
5' end seq. ID VSJ470F
5' end seq. 
>VSJ470F.Seq
CCCGCGTCCGGAAATACAAATACAACTTCTATCTCTTCAGATTATCTTCTCAACAAAAGA
GTAACAACAATGACAGTGATGATAGTGATGATGATAATGAAAAATGAAGGTGATGATGAC
AATATTATTAGAGTTCCAGAATTATCTTGTATTCAATGTAAAGGTCATTATTCTAAAAAT
ACTATCGAAAGTCAATTAGTTGAAATCATTCAAAGACGTTCATTATCTTATCAATTACAA
GATTTAAGATGCTCAAAATGTAATGATGTTAAATCTGATAACCTTGGTGATATTTGTCCA
CAATGTTCTGGTCAATGGGAATGTACTCAATCAAATAATTTATTTTCTAAAGATTTAATT
ATCTTTAAAAGTATTGCAGAATATCATAATTTTGAATGGTTAGGTGAGACTGTTGATTCA
TTATCCAAATTTATTTAATTGTACATATAAAATAAAAAATAAAAAAACTAAAAATTAAAA
AAATAAAAAAAAACTTTATTTTAAAAAAAAAA----------
Length of 5' end seq. 512
3' end seq. ID VSJ470Z
3' end seq. 
>VSJ470Z.Seq
----------GAAATACAAATACAACTTCTATCTCTTCAAGATTATCTTCTCAACAAAAG
AGTAACAACAATGACAGTGATGATAGTGATGATGATAATGAAAAATGAAGGTGATGATGA
CAATATTATTAGAGTTCCAGAATTATCTTGTATTCAATGTAAAGGTCATTATTCTAAAAA
TACTATCGAAAGTCAATTAGTTGAAATCATTCAAAGACGTTCATTATCTTATCAATTACA
AGATTTAAGATGCTCAAAATGTAATGATGTTAAATCTGATAACCTTGGTGATATTTGTCC
ACAATGTTCTGGTCAATGGGAATGTACTCAATCAAATAATTTATTTTCTAAAGATTTAAT
TATCTTTAAAAGTATTGCAGAATATCATAATTTTGAATGGTTAGGTGAGACTGTTGATTC
ATTATCCAAATTTATTTAATTGTACATATAAAATAAAAAATAAAAAAACTAAAAATTAAA
AAAATAAAAAAAAACT
Length of 3' end seq. 486
Connected seq. ID VSJ470P
Connected seq. 
>VSJ470P.Seq
CCCGCGTCCGGAAATACAAATACAACTTCTATCTCTTCAGATTATCTTCTCAACAAAAGA
GTAACAACAATGACAGTGATGATAGTGATGATGATAATGAAAAATGAAGGTGATGATGAC
AATATTATTAGAGTTCCAGAATTATCTTGTATTCAATGTAAAGGTCATTATTCTAAAAAT
ACTATCGAAAGTCAATTAGTTGAAATCATTCAAAGACGTTCATTATCTTATCAATTACAA
GATTTAAGATGCTCAAAATGTAATGATGTTAAATCTGATAACCTTGGTGATATTTGTCCA
CAATGTTCTGGTCAATGGGAATGTACTCAATCAAATAATTTATTTTCTAAAGATTTAATT
ATCTTTAAAAGTATTGCAGAATATCATAATTTTGAATGGTTAGGTGAGACTGTTGATTCA
TTATCCAAATTTATTTAATTGTACATATAAAATAAAAAATAAAAAAACTAAAAATTAAAA
AAATAAAAAAAAACTTTATTTTAAAAAAAAAA----------GAAATACAAATACAACTT
CTATCTCTTCAAGATTATCTTCTCAACAAAAGAGTAACAACAATGACAGTGATGATAGTG
ATGATGATAATGAAAAATGAAGGTGATGATGACAATATTATTAGAGTTCCAGAATTATCT
TGTATTCAATGTAAAGGTCATTATTCTAAAAATACTATCGAAAGTCAATTAGTTGAAATC
ATTCAAAGACGTTCATTATCTTATCAATTACAAGATTTAAGATGCTCAAAATGTAATGAT
GTTAAATCTGATAACCTTGGTGATATTTGTCCACAATGTTCTGGTCAATGGGAATGTACT
CAATCAAATAATTTATTTTCTAAAGATTTAATTATCTTTAAAAGTATTGCAGAATATCAT
AATTTTGAATGGTTAGGTGAGACTGTTGATTCATTATCCAAATTTATTTAATTGTACATA
TAAAATAAAAAATAAAAAAACTAAAAATTAAAAAAATAAAAAAAAACT
Length of connected seq. 998
Full length Seq ID -
Full length Seq. -
Length of full length seq. -