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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
VFJ458
Library VF
(Link to library)
Clone ID VFJ458
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U09061-1|Contig-U10621-1
Original site URL
Representative seq. ID VFJ458P
(Link to Original site)
Representative DNA sequence 
>VFJ458 (VFJ458Q) /CSM/VF/VFJ4-C/VFJ458Q.Seq.d/
CAAGTGAATGCCATCAAAAGATTTTTAGCGTTTCAGAAGTTAACCCATACAATATTAATA
GTTTAGTTGTTATTCAAGGTATTTTTTGTTTAAATAGTACAGAAGGAATTAAAGTTTCAC
TCAATGTACCAGAAGAAGGATCAAATATTTCATATGGATTAGATTGTGATGATAGTTTAA
CAATTGATTCAATTGGTGAAACCATTACATGTAGATTATCAGATAATTATAGTGGTAAAA
ATGCAGTAAACTTTACAACATTGGCAATTGTAATGGTTTATACACCAATTCCAGTACCAA
CACCAACACCATCAAAAACTCCAACAAAACAAATTGCTGTTGGACCAGTACCAGTATTAG
GAACTAGTAAATATATATTCACAAACAGTAGTTGTCCAAGTGGTTGTTCAGAAAATGGTT
TCTGTGATGTTGGAAATACATGTAGATGTAACCAAAACCAAGCATCATTTGATTGTAGTG
TCAGAGTTTATAACCAAACTTCATTACCATCACCAATAGTCCAAGCATTTAACACATTTT
CAATGAGTTCATCAAATGAGCAATTCAGTGTTGTTCTATCACATATCATTGCAAATCCTG
CTGGTTCXXXXXXXXXXATCTTCAAAACCATGGCTTAACCAATTGCAATATGATGTTGGC
TTCACTTCAGTTGAGGAACCATCATTTAGCTATGAAAATTACAAAGGTGCCTATTTACCA
TTATCATCATCAGCAGCCACAATTACTTTAACTCCAACTATTAATATCAACTATTTACCA
ACTGTTTATTATACAACTAGTGGTGGTGCAACTTATTCAATGATATTTAAAATATCGAAT
CAACATGACTCAATGAGTGGATATTCAAATGTTTTCTCTGAAACTTCAAATTCAATCACA
TTATCAAGTGGAGATGGTAAAAACTCTTTAATGGTTATTAGTTTATCTGATATCTATAGT
TTTAATCAAACAACCGCACCAAATCATGCTTATCTTTCATTGCTACCAAATCCAGGTTCT
TCTTTAATAAGCAATTATGATTCAGATTCTTTATATGTTTCAGTTAATATACCATCAATC
TATAGTACAAACAATCAAAATCCATATACAATTCAATTGAATATCAATGTTTATGATATT
GATACATCATCTCATTCTAAACTTCCAAAATGGGCTCTTGGTCTAATTGTAGGTTTCTCT
GTATTCATCGGTATTGTAATTATTTTCATTATAGCTAAATACATTAAAACAAAACGTCAT
AATTATTCAAGAATAAAGNATCATCATCATCAGGCCATTATTAAATAAATAAAATTTT
sequence update 2001.11.22
Translated Amino Acid sequence 
SECHQKIFSVSEVNPYNINSLVVIQGIFCLNSTEGIKVSLNVPEEGSNISYGLDCDDSLT
IDSIGETITCRLSDNYSGKNAVNFTTLAIVMVYTPIPVPTPTPSKTPTKQIAVGPVPVLG
TSKYIFTNSSCPSGCSENGFCDVGNTCRCNQNQASFDCSVRVYNQTSLPSPIVQAFNTFS
MSSSNEQFSVVLSHIIANPAG---

---SSKPWLNQLQYDVGFTSVEEPSFSYENYKGAYLPLSSSAATITLTPTININYLPTVY
YTTSGGATYSMIFKISNQHDSMSGYSNVFSETSNSITLSSGDGKNSLMVISLSDIYSFNQ
TTAPNHAYLSLLPNPGSSLISNYDSDSLYVSVNIPSIYSTNNQNPYTIQLNINVYDIDTS
SHSKLPKWALGLIVGFSVFIGIVIIFIIAKYIKTKRHNYSRIKXHHHQAIIK*ikf
Translated Amino Acid sequence (All Frames) 
Frame A:
qvnaikrflafqklthtiliv*llfkvffv*ivqkelkfhsmyqkkdqifhmd*ivmiv*
qliqlvkplhvdyqiiivvkmq*tlqhwql*wfihqfqyqhqhhqklqqnkllldqyqy*
elvniysqtvvvqvvvqkmvsvmleihvdvtktkhhlivvsefitklhyhhq*skhlthf
q*vhqmsnsvlfyhislqillv---

---ifktma*piai*cwlhfs*gtii*l*klqrclftiiiisshnyfnsny*yqlftncl
lyn*wwcnlfndi*niest*lnewifkcfl*nfkfnhiikwrw*klfngy*fi*yl*f*s
nnrtksclsfiatksrfffnkql*frfficfs*ytinl*ykqsksiynsieyqcl*y*yi
isf*tskmgswsncrflcihrycnyfhys*ih*nkts*lfknkxssssghy*inki

Frame B:
k*mpskdf*rfrs*piqy**fscysryflfk*yrrn*sftqctrrrikyfiwirl***fn
n*fnw*nhym*iir*l*w*kcsklynigncnglytnsstntntiknsnktnccwtstsir
n**iyihkq*lskwlfrkwfl*cwkym*m*pkpsii*l*cqsl*pnfititnspsi*hif
nefik*aiqccsityhckscwf---

---SSKPWLNQLQYDVGFTSVEEPSFSYENYKGAYLPLSSSAATITLTPTININYLPTVY
YTTSGGATYSMIFKISNQHDSMSGYSNVFSETSNSITLSSGDGKNSLMVISLSDIYSFNQ
TTAPNHAYLSLLPNPGSSLISNYDSDSLYVSVNIPSIYSTNNQNPYTIQLNINVYDIDTS
SHSKLPKWALGLIVGFSVFIGIVIIFIIAKYIKTKRHNYSRIKXHHHQAIIK*ikf

Frame C:
SECHQKIFSVSEVNPYNINSLVVIQGIFCLNSTEGIKVSLNVPEEGSNISYGLDCDDSLT
IDSIGETITCRLSDNYSGKNAVNFTTLAIVMVYTPIPVPTPTPSKTPTKQIAVGPVPVLG
TSKYIFTNSSCPSGCSENGFCDVGNTCRCNQNQASFDCSVRVYNQTSLPSPIVQAFNTFS
MSSSNEQFSVVLSHIIANPAG---

---lqnhgltncnmmlaslqlrnhhlamkitkvpiyhyhhqqpqll*lqllistiyqlfi
iqlvvvqliq*ylkyrinmtq*vdiqmfslklqiqshyqvemvktl*wllvylisivlik
qphqimlifhcyqiqvll**aimiqilymfqliyhqsivqtikihiqfn*ismfmilihh
lilnfqngllv*l*vslyssvl*lfsl*lntlkqnviiiqe*xiiiirpllnk*nf
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFJ458 (VFJ458Q) /CSM/VF/VFJ4-C/VFJ458Q.Seq.d/                       2547   0.0
VFJ332 (VFJ332Q) /CSM/VF/VFJ3-B/VFJ332Q.Seq.d/                       1354   0.0
VFL256 (VFL256Q) /CSM/VF/VFL2-C/VFL256Q.Seq.d/                       1195   0.0
VSG630 (VSG630Q) /CSM/VS/VSG6-B/VSG630Q.Seq.d/                       1013   0.0
SFH669 (SFH669Q) /CSM/SF/SFH6-C/SFH669Q.Seq.d/                        125   2e-27
AFK862 (AFK862Q) /CSM/AF/AFK8-C/AFK862Q.Seq.d/                         50   9e-05
SHB477 (SHB477Q) /CSM/SH/SHB4-D/SHB477Q.Seq.d/                         40   0.084
AHG576 (AHG576Q) /CSM/AH/AHG5-D/AHG576Q.Seq.d/                         40   0.084
VSK346 (VSK346Q) /CSM/VS/VSK3-B/VSK346Q.Seq.d/                         38   0.33
VSB392 (VSB392Q) /CSM/VS/VSB3-D/VSB392Q.Seq.d/                         38   0.33
own update 2004.12.25
Homology vs DNA 

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

AC117070|AC117070.2 Dictyostelium discoideum chromosome 2 map 2097701-2233941 strain AX4, complete sequence.    36   5e-10  15
AC115577|AC115577.2 Dictyostelium discoideum chromosome 2 map 4657875-4914984 strain AX4, complete sequence.    36   1e-07  20
AL844505|AL844505.1 Plasmodium falciparum chromosome  6.           34   5e-07  27
AC116957|AC116957.2 Dictyostelium discoideum chromosome 2 map 1685067-2090751 strain AX4, complete sequence.    32   4e-06  19
AC116986|AC116986.2 Dictyostelium discoideum chromosome 2 map 2234041-2567370 strain AX4, complete sequence.    38   6e-06  21
AC116305|AC116305.2 Dictyostelium discoideum chromosome 2 map 1005175-1418323 strain AX4, complete sequence.    32   4e-05  22
AC115592|AC115592.2 Dictyostelium discoideum chromosome 2 map 1-125959 strain AX4, complete sequence.    32   1e-04  13
AC116920|AC116920.2 Dictyostelium discoideum chromosome 2 map 3879572-4071762 strain AX4, complete sequence.    36   2e-04  14
AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.    32   2e-04  22
AE014819|AE014819.1 Plasmodium falciparum 3D7 chromosome 14 section 4 of 13 of the complete sequence.    34   2e-04  17
dna update 2004. 2.20
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AB072425_1(AB072425|pid:none) Oryzias latipes Reln mRNA for reel...    45   0.006
AC116960_61(AC116960|pid:none) Dictyostelium discoideum chromoso...    43   0.029
AF090951_1(AF090951|pid:none) Lacerta viridis reelin (reln) mRNA...    43   0.029
AC096673_18(AC096673|pid:none) Trypanosoma brucei chromosome 3 c...    42   0.049
S58870(S58870;S71844;I49297)reelin precursor - mouse                   42   0.064
AK297459_1(AK297459|pid:none) Homo sapiens cDNA FLJ51503 complet...    42   0.064
AK017094_1(AK017094|pid:none) Mus musculus adult male testis cDN...    42   0.064
(P78509) RecName: Full=Reelin;          EC=3.4.21.-; Flags: Prec...    42   0.064
AY650356_1(AY650356|pid:none) Macaca fascicularis reelin mRNA, p...    42   0.064
D63520_1(D63520|pid:none) Mouse reeler mRNA, complete cds.             42   0.064
protein update 2009. 6.22
PSORT 

 psg: 0.76  gvh: 0.50  alm: 0.10  top: 0.93  tms: 0.07  mit: 0.26  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.00  pox: 0.00  px2: 0.00  vac: 0.33  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 1.00  tyr: 0.00  leu: 0.01  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: 1.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 24.0 %: cytoplasmic
	 20.0 %: nuclear
	 12.0 %: Golgi
	 12.0 %: mitochondrial
	 12.0 %: vesicles of secretory system
	  8.0 %: endoplasmic reticulum
	  4.0 %: extracellular, including cell wall
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for VFJ458 is cyt
5' end seq. ID VFJ458F
5' end seq. 
>VFJ458F.Seq
CAAGTGAATGCCATCAAAAGATTTTTAGCGTTTCAGAAGTTAACCCATACAATATTAATA
GTTTAGTTGTTATTCAAGGTATTTTTTGTTTAAATAGTACAGAAGGAATTAAAGTTTCAC
TCAATGTACCAGAAGAAGGATCAAATATTTCATATGGATTAGATTGTGATGATAGTTTAA
CAATTGATTCAATTGGTGAAACCATTACATGTAGATTATCAGATAATTATAGTGGTAAAA
ATGCAGTAAACTTTACAACATTGGCAATTGTAATGGTTTATACACCAATTCCAGTACCAA
CACCAACACCATCAAAAACTCCAACAAAACAAATTGCTGTTGGACCAGTACCAGTATTAG
GAACTAGTAAATATATATTCACAAACAGTAGTTGTCCAAGTGGTTGTTCAGAAAATGGTT
TCTGTGATGTTGGAAATACATGTAGATGTAACCAAAACCAAGCATCATTTGATTGTAGTG
TCAGAGTTTATAACCAAACTTCATTACCATCACCAATAGTCCAAGCATTTAACACATTTT
CAATGAGTTCATCAAATGAGCAATTCAGTGTTGTTCTATCACATATCATTGCAAATCCTG
CTGGTTCNNNNNNNNNN
Length of 5' end seq. 617
3' end seq. ID VFJ458Z
3' end seq. 
>VFJ458Z.Seq
NNNNNNNNNNATCTTCAAAACCATGGCTTAACCAATTGCAATATGATGTTGGCTTCACTT
CAGTTGAGGAACCATCATTTAGCTATGAAAATTACAAAGGTGCCTATTTACCATTATCAT
CATCAGCAGCCACAATTACTTTAACTCCAACTATTAATATCAACTATTTACCAACTGTTT
ATTATACAACTAGTGGTGGTGCAACTTATTCAATGATATTTAAAATATCGAATCAACATG
ACTCAATGAGTGGATATTCAAATGTTTTCTCTGAAACTTCAAATTCAATCACATTATCAA
GTGGAGATGGTAAAAACTCTTTAATGGTTATTAGTTTATCTGATATCTATAGTTTTAATC
AAACAACCGCACCAAATCATGCTTATCTTTCATTGCTACCAAATCCAGGTTCTTCTTTAA
TAAGCAATTATGATTCAGATTCTTTATATGTTTCAGTTAATATACCATCAATCTATAGTA
CAAACAATCAAAATCCATATACAATTCAATTGAATATCAATGTTTATGATATTGATACAT
CATCTCATTCTAAACTTCCAAAATGGGCTCTTGGTCTAATTGTAGGTTTCTCTGTATTCA
TCGGTATTGTAATTATTTTCATTATAGCTAAATACATTAAAACAAAACGTCATAATTATT
CAAGAATAAAGNATCATCATCATCAGGCCATTATTAAATAAATAAAATTTT
Length of 3' end seq. 711
Connected seq. ID VFJ458P
Connected seq. 
>VFJ458P.Seq
CAAGTGAATGCCATCAAAAGATTTTTAGCGTTTCAGAAGTTAACCCATACAATATTAATA
GTTTAGTTGTTATTCAAGGTATTTTTTGTTTAAATAGTACAGAAGGAATTAAAGTTTCAC
TCAATGTACCAGAAGAAGGATCAAATATTTCATATGGATTAGATTGTGATGATAGTTTAA
CAATTGATTCAATTGGTGAAACCATTACATGTAGATTATCAGATAATTATAGTGGTAAAA
ATGCAGTAAACTTTACAACATTGGCAATTGTAATGGTTTATACACCAATTCCAGTACCAA
CACCAACACCATCAAAAACTCCAACAAAACAAATTGCTGTTGGACCAGTACCAGTATTAG
GAACTAGTAAATATATATTCACAAACAGTAGTTGTCCAAGTGGTTGTTCAGAAAATGGTT
TCTGTGATGTTGGAAATACATGTAGATGTAACCAAAACCAAGCATCATTTGATTGTAGTG
TCAGAGTTTATAACCAAACTTCATTACCATCACCAATAGTCCAAGCATTTAACACATTTT
CAATGAGTTCATCAAATGAGCAATTCAGTGTTGTTCTATCACATATCATTGCAAATCCTG
CTGGTTC----------ATCTTCAAAACCATGGCTTAACCAATTGCAATATGATGTTGGC
TTCACTTCAGTTGAGGAACCATCATTTAGCTATGAAAATTACAAAGGTGCCTATTTACCA
TTATCATCATCAGCAGCCACAATTACTTTAACTCCAACTATTAATATCAACTATTTACCA
ACTGTTTATTATACAACTAGTGGTGGTGCAACTTATTCAATGATATTTAAAATATCGAAT
CAACATGACTCAATGAGTGGATATTCAAATGTTTTCTCTGAAACTTCAAATTCAATCACA
TTATCAAGTGGAGATGGTAAAAACTCTTTAATGGTTATTAGTTTATCTGATATCTATAGT
TTTAATCAAACAACCGCACCAAATCATGCTTATCTTTCATTGCTACCAAATCCAGGTTCT
TCTTTAATAAGCAATTATGATTCAGATTCTTTATATGTTTCAGTTAATATACCATCAATC
TATAGTACAAACAATCAAAATCCATATACAATTCAATTGAATATCAATGTTTATGATATT
GATACATCATCTCATTCTAAACTTCCAAAATGGGCTCTTGGTCTAATTGTAGGTTTCTCT
GTATTCATCGGTATTGTAATTATTTTCATTATAGCTAAATACATTAAAACAAAACGTCAT
AATTATTCAAGAATAAAGNATCATCATCATCAGGCCATTATTAAATAAATAAAATTTT
Length of connected seq. 1308
Full length Seq ID -
Full length Seq. -
Length of full length seq. -