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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
VSE562
Library VS
(Link to library)
Clone ID VSE562
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U06650-1
Original site URL
Representative seq. ID VSE562E
(Link to Original site)
Representative DNA sequence 
>VSE562 (VSE562Q) /CSM/VS/VSE5-C/VSE562Q.Seq.d/
GAAATTAGTGGTTATTGAAAAGATTAAAAAAACTATAAAATGTCAACAAAAAGGAAAAGA
ATGTTTTCAAAAGAATTAAAACATATGATGTATGGTTTTGGAGATGTTAGAGAACCATTA
CATGAATCAATAGATTTGTTAGAAGAGTTAGTTTTCGAATTTATACAAGAAATGACATTA
AAAGCAGCTCAAGTTTCAAATAAAAGAGGTAAATTTCAAACAGAGGATTTAGTTTTTCTT
GTAAGAAAAGATCCAAAGAAATATTACAGAGTTATTGAATTATTAAGAATGAATGAAGAG
TTGAAGAAAGCAAAGAAAGCTTTTGATGAAACTAATGTTGAAGAGGAAGAAAATGTTTAA
AAAAAAAAAAAAAAAAAAGATAAAATAATGATAATAAAGAATATGTACATAAATTTTCAA
AAAAAAAAAAAAAAAAAAAAGTGAACTTTCCGTCCAAGTTTTTTTTCTTTTTTCCATTTA
AAAATTAGGGAAAAAAAAAAAAAATTACTAAAAATATCCAACAAATGAAAAATTACTAAA
AATATCCAATAAAATAAAATATTAAAGATTGTAAAATAAAAATAAAAAAAAAAA
sequence update 2000. 8.25
Translated Amino Acid sequence 
eisgy*kd*KNYKMSTKRKRMFSKELKHMMYGFGDVREPLHESIDLLEELVFEFIQEMTL
KAAQVSNKRGKFQTEDLVFLVRKDPKKYYRVIELLRMNEELKKAKKAFDETNVEEEENV*
kkkkkkdkimiiknmyinfqkkkkkkk*tfrpsffsffhlkirekkkkllkisnk*kitk
niq*nkilkivk*k*kkk
Translated Amino Acid sequence (All Frames) 
Frame A:
eisgy*kd*KNYKMSTKRKRMFSKELKHMMYGFGDVREPLHESIDLLEELVFEFIQEMTL
KAAQVSNKRGKFQTEDLVFLVRKDPKKYYRVIELLRMNEELKKAKKAFDETNVEEEENV*
kkkkkkdkimiiknmyinfqkkkkkkk*tfrpsffsffhlkirekkkkllkisnk*kitk
niq*nkilkivk*k*kkk


Frame B:
klvviekikktikcqqkgkecfqkn*ni*cmvlemlenhymnq*ic*ks*fsnlykk*h*
kqlkfqikevnfkqri*ffl*ekiqrnitellny*e*mks*rkqrkllmklmlkrkkmfk
kkkkkkik****rict*ifkkkkkkkselsvqvfflfsi*klgkkkkny*kyptnekllk
isnkiky*rl*nknkkk


Frame C:
n*wllkrlkkl*nvnkkeknvfkriktydvwfwrc*rtit*inrfvrrvsfriytrndik
ssssfk*kr*isnrgfsfsckkrskeilqsy*iikne*rveeskesf**n*c*rgrkclk
kkkkkr*nndnkeyvhkfskkkkkkkvnfpskfffffpfkn*gkkkkitkniqqmkny*k
ypik*nikdckikikkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSH321 (VSH321Q) /CSM/VS/VSH3-A/VSH321Q.Seq.d/                        595   e-169
VSE562 (VSE562Q) /CSM/VS/VSE5-C/VSE562Q.Seq.d/                        595   e-169
AHP589 (AHP589Q) /CSM/AH/AHP5-D/AHP589Q.Seq.d/                         42   0.009
VFO767 (VFO767Q) /CSM/VF/VFO7-C/VFO767Q.Seq.d/                         38   0.15
VFF459 (VFF459Q) /CSM/VF/VFF4-C/VFF459Q.Seq.d/                         38   0.15
VFA522 (VFA522Q) /CSM/VF/VFA5-A/VFA522Q.Seq.d/                         38   0.15
SSF590 (SSF590Q) /CSM/SS/SSF5-D/SSF590Q.Seq.d/                         38   0.15
AHN117 (AHN117Q) /CSM/AH/AHN1-A/AHN117Q.Seq.d/                         38   0.15
VSD424 (VSD424Q) /CSM/VS/VSD4-A/VSD424Q.Seq.d/                         36   0.58
VSD294 (VSD294Q) /CSM/VS/VSD2-D/VSD294Q.Seq.d/                         36   0.58
own update 2003.10.31
Homology vs DNA 

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

BI512661|BI512661.1 BB160009B20H06.5 Bee Brain Normalized Library, BB16 Apis mellifera cDNA clone BB160009B20H06 5', mRNA sequence.    38  6e-06  3
CB922684|CB922684.1 VVD086F10_356001 An expressed sequence tag database for abiotic stressed berries of Vitis vinifera var. Chardonnay Vitis vinifera cDNA clone VVD086F10 5, mRNA sequence.    60  3e-05  1
BM436771|BM436771.1 VVA009G03_53125 An expressed sequence tag database for abiotic stressed leaves of Vitis vinifera var. Chardonnay Vitis vinifera cDNA clone VVA009G03 5, mRNA sequence.    60  3e-05  1
CB913093|CB913093.1 VVD161F03_376243 An expressed sequence tag database for abiotic stressed berries of Vitis vinifera var. Chardonnay Vitis vinifera cDNA clone VVD161F03 5, mRNA sequence.    60  3e-05  1
CB918811|CB918811.1 VVD037H12_348255 An expressed sequence tag database for abiotic stressed berries of Vitis vinifera var. Chardonnay Vitis vinifera cDNA clone VVD037H12 5, mRNA sequence.    60  3e-05  1
CD003701|CD003701.1 VVA009G03_390995 An expressed sequence tag database for abiotic stressed leaves of Vitis vinifera var. Chardonnay Vitis vinifera cDNA clone VVA009G03 3, mRNA sequence.    60  3e-05  1
CB342399|CB342399.1 CA32EN0003_IIIbR_H01 Cabernet Sauvignon Leaf - CA32EN Vitis vinifera cDNA clone CA32EN0003_IIIbR_H01 3', mRNA sequence.    54  1e-04  2
BQ989134|BQ989134.1 QGF16N15.yg.ab1 QG_EFGHJ lettuce serriola Lactuca sativa cDNA clone QGF16N15, mRNA sequence.    46  4e-04  2
BQ982373|BQ982373.1 QGE16E10.yg.ab1 QG_EFGHJ lettuce serriola Lactuca sativa cDNA clone QGE16E10, mRNA sequence.    46  5e-04  2
CB342335|CB342335.1 CA32EN0003_IIIbF_H01 Cabernet Sauvignon Leaf - CA32EN Vitis vinifera cDNA clone CA32EN0003_IIIbF_H01 5', mRNA sequence.    54  0.002  1
dna update 2003. 8.17
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54CN8) RecName: Full=Transcription initiation factor TFIID sub...   195   9e-49
DQ886875_1(DQ886875|pid:none) Argas monolakensis transcription i...   125   9e-28
BT074673_1(BT074673|pid:none) Osmerus mordax clone omor-eva-003-...   122   6e-27
AJ719329_1(AJ719329|pid:none) Gallus gallus mRNA for hypothetica...   122   6e-27
BT057479_1(BT057479|pid:none) Salmo salar clone ssal-sjb-009-192...   122   8e-27
BT073682_1(BT073682|pid:none) Oncorhynchus mykiss clone omyk-evo...   122   8e-27
BT079437_1(BT079437|pid:none) Esox lucius clone eluc-evq-525-043...   122   8e-27
BT047537_1(BT047537|pid:none) Salmo salar clone ssal-evd-523-083...   122   8e-27
BC121181_1(BC121181|pid:none) Homo sapiens TAF13 RNA polymerase ...   122   8e-27
BT079186_1(BT079186|pid:none) Esox lucius clone eluc-evq-518-146...   122   8e-27
protein update 2009. 7.30
PSORT 

 psg: 0.56  gvh: 0.28  alm: 0.47  top: 0.53  tms: 0.00  mit: 0.40  mip: 0.03
 nuc: 0.16  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 

	 48.0 %: nuclear
	 28.0 %: mitochondrial
	 16.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for VSE562 is nuc
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID -
3' end seq. -
Length of 3' end seq. -
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID VSE562E
Full length Seq. 
>VSE562E.Seq
GAAATTAGTGGTTATTGAAAAGATTAAAAAAACTATAAAATGTCAACAAAAAGGAAAAGA
ATGTTTTCAAAAGAATTAAAACATATGATGTATGGTTTTGGAGATGTTAGAGAACCATTA
CATGAATCAATAGATTTGTTAGAAGAGTTAGTTTTCGAATTTATACAAGAAATGACATTA
AAAGCAGCTCAAGTTTCAAATAAAAGAGGTAAATTTCAAACAGAGGATTTAGTTTTTCTT
GTAAGAAAAGATCCAAAGAAATATTACAGAGTTATTGAATTATTAAGAATGAATGAAGAG
TTGAAGAAAGCAAAGAAAGCTTTTGATGAAACTAATGTTGAAGAGGAAGAAAATGTTTAA
AAAAAAAAAAAAAAAAAAGATAAAATAATGATAATAAAGAATATGTACATAAATTTTCAA
AAAAAAAAAAAAAAAAAAAAGTGAACTTTCCGTCCAAGTTTTTTTTCTTTTTTCCATTTA
AAAATTAGGGAAAAAAAAAAAAAATTACTAAAAATATCCAACAAATGAAAAATTACTAAA
AATATCCAATAAAATAAAATATTAAAGATTGTAAAATAAAAATAAAAAAAAAAA
Length of full length seq. 594