VFJ859
Library VF
(Link to library)
Clone ID VFJ859
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U12338-1
Original site URL
Representative seq. ID VFJ859P
(Link to Original site)
Representative DNA sequence
>VFJ859 (VFJ859Q) /CSM/VF/VFJ8-C/VFJ859Q.Seq.d/
TTAACATCATCCAAACAAAATGATATCNGCCAACGTAGAGTATCCATTTACGGAACCTGG
TAAACTACAACAATGGAGATACTCAGTTGGTGATAAATTCGACAAAGGTTCAATCATTGG
TATATTTAATTCATCAAAGAATCAATCAGAATTAAATTTAATATCTCAATATGATGGTAT
TATTAAATCAATCTTAATAAATGATACAAAAAAAGAATTAAATAAAGGGGATGAATTATA
TAATATTGAATATTGTACACATGATATTCAATTTAGTGGATTATGTGCGACATGTGGTAG
AGAATTAACAGATACACAAGAATCATTATCAATTTTACATGGTCATTCACATTTAACTGT
ATCACATAAAGAAGCACAAAGAATTGGTGATATAAATACTAAAAGATTATTAATGGAAAA
GAAACTTTCGCTAGTATTGGATTTAGATCATACAGTTATTCATGCTGTCACTGAACAAGG
TTTTAACTCTTCTCCAGAATGGAGAAATAAAGATAAAAATAAAAATGGTATTCATACAAT
CACTGTCAATGGTCCAATGAATTATTGTATTAAAAAAAGACCACATTTAGTGAAATTTTT
AACAGAAGTAAATAAAATTTATGAATTACATATTTATACAATGGGTACTAXXXXXXXXXX
ATCCATTAGGTACACCAATTCAANAACAACCANTACGTTGGTNAGCTGAGGAATTTGGTA
GTGTAGTTCANAATGATATNANCAATGANACTACTCATGTCNTTGCTCANCNAAAAGGTN
CTTCCAAAGTTAATAAAGCATNATCANAAGGTTTAAAAGTTATCTCACCACAATGGTTAA
TAGNATCAACAAGAATTTGGCNAATGGCAGNCGAAGATGATTTCAGTTTACCCACCGATA
TTGATAGTNCAANAACGGCAACCTCTTCNAATGGTGGNAGTGTAGTTNATGATGGTGCTG
CTACTAGTGGTGGTGGTAGTGGNAAAGATGCACCATNAGTAGAGGAGGATGAAGAAACTA
AAGCANATTTAGANAAAGTTGCTGCNNATTTAATCACTGGTGGAGTTNTAGATGCANNAT
ATAATGATGATGNTGATAAAGAATTGGAGGATTTTTTAGATGGTGANAGTGATGNTGATA
GTCNAGGTAGTNGAAGTAGTAATGCNAGTGCNAATTCNAGTGATTATGATAATGATGANG
ATGAAGATGATGATGATGAACAGNANAATCAAGATAATTCNACAGCAGCAGCTGTTGATA
TAATAATAATATATATAATAAAATAATAATAATATATAATA
sequence update 2001.11.22
Translated Amino Acid sequence
*HHPNKMISANVEYPFTEPGKLQQWRYSVGDKFDKGSIIGIFNSSKNQSELNLISQYDGI
IKSILINDTKKELNKGDELYNIEYCTHDIQFSGLCATCGRELTDTQESLSILHGHSHLTV
SHKEAQRIGDINTKRLLMEKKLSLVLDLDHTVIHAVTEQGFNSSPEWRNKDKNKNGIHTI
TVNGPMNYCIKKRPHLVKFLTEVNKIYELHIYTMGT---

---PLGTPIQXQPXRWXAEEFGSVVXNDXXNXTTHVXAXXKGXSKVNKAXSXGLKVISPQ
WLIXSTRIWXMAXEDDFSLPTDIDSXXTATSSNGGSVVXDGAATSGGGSGKDAPXVEEDE
ETKAXLXKVAAXLITGGVXDAXYNDDXDKELEDFLDGXSDXDSXGSXSSNASANSSDYDN
DXDEDDDDEQXNQDNSTAAAVDIIIIYIIK***yii


Translated Amino Acid sequence (All Frames)
Frame A:
ltsskqndixqrrvsiygtw*tttmeilsw**irqrfnhwyi*fikesirikfnisi*wy
y*inlnk*ykkrik*rg*ii*y*ilyt*ysi*wimcdmw*rinrytriiinftwsftfnc
it*rstknw*yky*kiingketfasigfrsysyscch*trf*lfsrmek*r*k*kwysyn
hcqwsnelly*kkttfseifnrsk*nl*itylyngy---

---ih*vhqfxnnxyvgxlrnlvv*fxmixxmxllmsllxxkvlpklikhxxkv*klshh
ng**xqqefgxwqxkmisvyppilivqxrqplxmvxv*xmmvlllvvvvvxkmhhx*rrm
kklkxi*xkllxi*slvex*mxximmmxiknwrif*mvxvmxivxvvevvmxvxixvimi
mmxmkmmmmnxxikiixqqqlli***yi**nnnni*

Frame B:
*HHPNKMISANVEYPFTEPGKLQQWRYSVGDKFDKGSIIGIFNSSKNQSELNLISQYDGI
IKSILINDTKKELNKGDELYNIEYCTHDIQFSGLCATCGRELTDTQESLSILHGHSHLTV
SHKEAQRIGDINTKRLLMEKKLSLVLDLDHTVIHAVTEQGFNSSPEWRNKDKNKNGIHTI
TVNGPMNYCIKKRPHLVKFLTEVNKIYELHIYTMGT---

---sirytnsxttxtlvs*giw*cssx*yxq*xyscxcsxkrxfqs**sxixrfksyltt
mvnxinknlangxrr*fqfthry**xxngnlfxwwxcsx*wccy*www*wxrctxsrgg*
rn*sxfrxsccxfnhwwsxrcxi***x**riggffrw*x*x**sr*xk**cxcxfx*l**
**x*r****txxsr*fxsssc*ynnniynkiiiiyn

Frame C:
niiqtk*yxpt*sihlrnlvnynngdtqlvinstkvqslvylihqrinqn*i*ylnmmvl
lnqs**miqkkn*ikgmnyiilnivhmifnlvdyvrhvven*qihknhyqfymvihi*ly
hikkhkelvi*ilkdy*wkrnfr*ywi*iiqlfmlslnkvltllqngeikikikmvfiqs
lsmvq*iivlkkdhi**nf*qk*ikfmnyifiqwvl---

---PLGTPIQXQPXRWXAEEFGSVVXNDXXNXTTHVXAXXKGXSKVNKAXSXGLKVISPQ
WLIXSTRIWXMAXEDDFSLPTDIDSXXTATSSNGGSVVXDGAATSGGGSGKDAPXVEEDE
ETKAXLXKVAAXLITGGVXDAXYNDDXDKELEDFLDGXSDXDSXGSXSSNASANSSDYDN
DXDEDDDDEQXNQDNSTAAAVDIIIIYIIK***yii

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VFJ859 (VFJ859Q) /CSM/VF/VFJ8-C/VFJ859Q.Seq.d/ 1965 0.0
VHF229 (VHF229Q) /CSM/VH/VHF2-B/VHF229Q.Seq.d/ 86 2e-15
SLH813 (SLH813Q) /CSM/SL/SLH8-A/SLH813Q.Seq.d/ 44 0.005
SSC645 (SSC645Q) /CSM/SS/SSC6-B/SSC645Q.Seq.d/ 42 0.021
CHE236 (CHE236Q) /CSM/CH/CHE2-B/CHE236Q.Seq.d/ 42 0.021
CHE136 (CHE136Q) /CSM/CH/CHE1-B/CHE136Q.Seq.d/ 42 0.021
AHH771 (AHH771Q) /CSM/AH/AHH7-C/AHH771Q.Seq.d/ 42 0.021
AHE374 (AHE374Q) /CSM/AH/AHE3-D/AHE374Q.Seq.d/ 42 0.021
VSG664 (VSG664Q) /CSM/VS/VSG6-C/VSG664Q.Seq.d/ 40 0.083
VSA244 (VSA244Q) /CSM/VS/VSA2-B/VSA244Q.Seq.d/ 40 0.083

own update 2009. 4. 4
Homology vs DNA

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

(AC117072) Dictyostelium discoideum chromosome 2 map 3879572... 797 0.0 6
(BJ414835) Dictyostelium discoideum cDNA clone:ddv20f16, 5' ... 708 0.0 3
(BJ433030) Dictyostelium discoideum cDNA clone:ddv20f16, 3' ... 805 0.0 2
(DE022260) Branchiostoma floridae DNA, clone: CH302-035O15.F... 52 0.053 1
(AC115598) Dictyostelium discoideum chromosome 2 map 581427-... 40 0.14 7
(AM484777) Vitis vinifera contig VV78X184452.1, whole genome... 50 0.21 1
(CU138490) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 50 0.21 1
(AC201673) Strongylocentrotus purpuratus clone R3-4017M12, W... 50 0.21 1
(AC180297) Strongylocentrotus purpuratus clone R3-3119J08, W... 50 0.21 1
(CN214460) 28167 Suspension culture Solanum tuberosum cDNA, ... 50 0.21 1
dna update 2009. 1.31
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

AC117072_26(AC117072|pid:none) Dictyostelium discoideum chromoso... 432 e-119
(Q9P376) RecName: Full=RNA polymerase II subunit A C-terminal do... 105 5e-21
CU633870_29(CU633870|pid:none) Podospora anserina genomic DNA ch... 99 4e-19
CR382131_136(CR382131|pid:none) Yarrowia lipolytica strain CLIB1... 95 5e-18
(Q9Y5B0) RecName: Full=RNA polymerase II subunit A C-terminal do... 94 8e-18
AF154115_1(AF154115|pid:none) Homo sapiens RNA polymerase II CTD... 94 8e-18
BC063447_1(BC063447|pid:none) Homo sapiens CTD (carboxy-terminal... 94 8e-18
BT079731_1(BT079731|pid:none) Esox lucius clone eluc-evq-530-276... 93 2e-17
AM920428_969(AM920428|pid:none) Penicillium chrysogenum Wisconsi... 92 3e-17
CP000501_352(CP000501|pid:none) Pichia stipitis CBS 6054 chromos... 92 3e-17
protein update 2009. 6.22
PSORT

psg: 0.73 gvh: 0.24 alm: 0.42 top: 0.53 tms: 0.00 mit: 0.23 mip: 0.00
nuc: 0.03 erl: 0.00 erm: 0.00 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

52.0 %: nuclear
32.0 %: cytoplasmic
4.0 %: cytoskeletal
4.0 %: Golgi
4.0 %: vacuolar
4.0 %: plasma membrane

>> prediction for VFJ859 is nuc

5' end seq. ID VFJ859F
5' end seq.
>VFJ859F.Seq
TTAACATCATCCAAACAAAATGATATCNGCCAACGTAGAGTATCCATTTACGGAACCTGG
TAAACTACAACAATGGAGATACTCAGTTGGTGATAAATTCGACAAAGGTTCAATCATTGG
TATATTTAATTCATCAAAGAATCAATCAGAATTAAATTTAATATCTCAATATGATGGTAT
TATTAAATCAATCTTAATAAATGATACAAAAAAAGAATTAAATAAAGGGGATGAATTATA
TAATATTGAATATTGTACACATGATATTCAATTTAGTGGATTATGTGCGACATGTGGTAG
AGAATTAACAGATACACAAGAATCATTATCAATTTTACATGGTCATTCACATTTAACTGT
ATCACATAAAGAAGCACAAAGAATTGGTGATATAAATACTAAAAGATTATTAATGGAAAA
GAAACTTTCGCTAGTATTGGATTTAGATCATACAGTTATTCATGCTGTCACTGAACAAGG
TTTTAACTCTTCTCCAGAATGGAGAAATAAAGATAAAAATAAAAATGGTATTCATACAAT
CACTGTCAATGGTCCAATGAATTATTGTATTAAAAAAAGACCACATTTAGTGAAATTTTT
AACAGAAGTAAATAAAATTTATGAATTACATATTTATACAATGGGTACTANNNNNNNNNN
Length of 5' end seq. 660
3' end seq. ID VFJ859Z
3' end seq.
>VFJ859Z.Seq
NNNNNNNNNNATCCATTAGGTACACCAATTCAANAACAACCANTACGTTGGTNAGCTGAG
GAATTTGGTAGTGTAGTTCANAATGATATNANCAATGANACTACTCATGTCNTTGCTCAN
CNAAAAGGTNCTTCCAAAGTTAATAAAGCATNATCANAAGGTTTAAAAGTTATCTCACCA
CAATGGTTAATAGNATCAACAAGAATTTGGCNAATGGCAGNCGAAGATGATTTCAGTTTA
CCCACCGATATTGATAGTNCAANAACGGCAACCTCTTCNAATGGTGGNAGTGTAGTTNAT
GATGGTGCTGCTACTAGTGGTGGTGGTAGTGGNAAAGATGCACCATNAGTAGAGGAGGAT
GAAGAAACTAAAGCANATTTAGANAAAGTTGCTGCNNATTTAATCACTGGTGGAGTTNTA
GATGCANNATATAATGATGATGNTGATAAAGAATTGGAGGATTTTTTAGATGGTGANAGT
GATGNTGATAGTCNAGGTAGTNGAAGTAGTAATGCNAGTGCNAATTCNAGTGATTATGAT
AATGATGANGATGAAGATGATGATGATGAACAGNANAATCAAGATAATTCNACAGCAGCA
GCTGTTGATATAATAATAATATATATAATAAAATAATAATAATATATAATA
Length of 3' end seq. 651
Connected seq. ID VFJ859P
Connected seq.
>VFJ859P.Seq
TTAACATCATCCAAACAAAATGATATCNGCCAACGTAGAGTATCCATTTACGGAACCTGG
TAAACTACAACAATGGAGATACTCAGTTGGTGATAAATTCGACAAAGGTTCAATCATTGG
TATATTTAATTCATCAAAGAATCAATCAGAATTAAATTTAATATCTCAATATGATGGTAT
TATTAAATCAATCTTAATAAATGATACAAAAAAAGAATTAAATAAAGGGGATGAATTATA
TAATATTGAATATTGTACACATGATATTCAATTTAGTGGATTATGTGCGACATGTGGTAG
AGAATTAACAGATACACAAGAATCATTATCAATTTTACATGGTCATTCACATTTAACTGT
ATCACATAAAGAAGCACAAAGAATTGGTGATATAAATACTAAAAGATTATTAATGGAAAA
GAAACTTTCGCTAGTATTGGATTTAGATCATACAGTTATTCATGCTGTCACTGAACAAGG
TTTTAACTCTTCTCCAGAATGGAGAAATAAAGATAAAAATAAAAATGGTATTCATACAAT
CACTGTCAATGGTCCAATGAATTATTGTATTAAAAAAAGACCACATTTAGTGAAATTTTT
AACAGAAGTAAATAAAATTTATGAATTACATATTTATACAATGGGTACTA----------
ATCCATTAGGTACACCAATTCAANAACAACCANTACGTTGGTNAGCTGAGGAATTTGGTA
GTGTAGTTCANAATGATATNANCAATGANACTACTCATGTCNTTGCTCANCNAAAAGGTN
CTTCCAAAGTTAATAAAGCATNATCANAAGGTTTAAAAGTTATCTCACCACAATGGTTAA
TAGNATCAACAAGAATTTGGCNAATGGCAGNCGAAGATGATTTCAGTTTACCCACCGATA
TTGATAGTNCAANAACGGCAACCTCTTCNAATGGTGGNAGTGTAGTTNATGATGGTGCTG
CTACTAGTGGTGGTGGTAGTGGNAAAGATGCACCATNAGTAGAGGAGGATGAAGAAACTA
AAGCANATTTAGANAAAGTTGCTGCNNATTTAATCACTGGTGGAGTTNTAGATGCANNAT
ATAATGATGATGNTGATAAAGAATTGGAGGATTTTTTAGATGGTGANAGTGATGNTGATA
GTCNAGGTAGTNGAAGTAGTAATGCNAGTGCNAATTCNAGTGATTATGATAATGATGANG
ATGAAGATGATGATGATGAACAGNANAATCAAGATAATTCNACAGCAGCAGCTGTTGATA
TAATAATAATATATATAATAAAATAATAATAATATATAATA
Length of connected seq. 1291
Full length Seq ID -
Full length Seq. -
Length of full length seq. -