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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
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VHE489
Library VH
(Link to library)
Clone ID VHE489
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11202-1
Original site URL
Representative seq. ID VHE489P
(Link to Original site)
Representative DNA sequence 
>VHE489 (VHE489Q) /CSM/VH/VHE4-D/VHE489Q.Seq.d/
AAGCATTATCAGANGGATGTNCACCNAAAGAGANTTGTGANAAATATCATGANATTCATA
AAGAGATTTATGAATGGTTTAATATTTCATTNGATAAATTTGGXXXXXXXXXXGAGGTNA
ATGATCATCCATCCGCAGAGAATTTATATGTAATTAAATTAAGTTTAGGTGGTGATCAAA
CTAAAACCGCAGTTTCAGGTATTAAAGCNAACTTTGAAAAATCCCAACTCATTGGTAAGA
AANTGGCTGTAGTATTAAATTTGAAACCTTCAAAATTCAAAGGTGTTCTCTCCTGAAGCA
ATGATTCTTGNTGCTGATGATGGTCAAGCCANTAAAGAAAGTTTATCATTCTTGGTACCA
TCAAATCCACAATCAATTGAAGCTGGTTCAAAATATTGCCGGTAAAGGTATGTCAATTAA
ACCAAAACCAACAATAGATTATCAAAAAGAATTCCTTCATTANG
sequence update 2002.10.25
Translated Amino Acid sequence 
KHYQXDVHXKRXVXNIMXFIKRFMNGLIFHXINL---

---EVNDHPSAENLYVIKLSLGGDQTKTAVSGIKANFEKSQLIGKKXAVVLNLKPSKFKG
VLS*sndsxc**wssx*rkfiilgtikstin*swfkilpvkvcqlnqnqq*iikknsfix
Translated Amino Acid sequence (All Frames) 
Frame A:
KHYQXDVHXKRXVXNIMXFIKRFMNGLIFHXINL---

---EVNDHPSAENLYVIKLSLGGDQTKTAVSGIKANFEKSQLIGKKXAVVLNLKPSKFKG
VLS*sndsxc**wssx*rkfiilgtikstin*swfkilpvkvcqlnqnqq*iikknsfix

Frame B:
siirxmxtxrxl*xis*xs*rdl*mv*yfix*iw---

---rxmiihpqriym*ln*v*vviklkpqfqvlkxtlknpnslvrxwl*y*i*nlqnskv
fspeamilxaddgqaxkeslsflvpsnpqsieagskycr*ryvn*tktnnrlskripsl

Frame C:
alsxgcxpkexcxkyhxihkeiyewfnisxdkf---

---gx*ssirreficn*ikfrw*sn*nrsfry*sxl*kipthw*exgcsikfetfkiqrc
sllkq*flxlmmvkpxkkvyhswyhqihnqlklvqniagkgmsikpkptidyqkeflhx
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHE489 (VHE489Q) /CSM/VH/VHE4-D/VHE489Q.Seq.d/                        785   0.0
VHQ381 (VHQ381Q) /CSM/VH/VHQ3-D/VHQ381Q.Seq.d/                        622   e-177
VHO648 (VHO648Q) /CSM/VH/VHO6-B/VHO648Q.Seq.d/                        622   e-177
VHN864 (VHN864Q) /CSM/VH/VHN8-C/VHN864Q.Seq.d/                        622   e-177
VHM434 (VHM434Q) /CSM/VH/VHM4-B/VHM434Q.Seq.d/                        622   e-177
VHM217 (VHM217Q) /CSM/VH/VHM2-A/VHM217Q.Seq.d/                        622   e-177
VHK475 (VHK475Q) /CSM/VH/VHK4-D/VHK475Q.Seq.d/                        622   e-177
VHJ847 (VHJ847Q) /CSM/VH/VHJ8-B/VHJ847Q.Seq.d/                        622   e-177
VHC720 (VHC720Q) /CSM/VH/VHC7-A/VHC720Q.Seq.d/                        622   e-177
VHC493 (VHC493Q) /CSM/VH/VHC4-D/VHC493Q.Seq.d/                        622   e-177
own update 2004.12.24
Homology vs DNA 

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

EL477374|EL477374.1 CHUL5577.b1_A04.ab1 CHU(LMS) puzzle sunflower Helianthus paradoxuscDNA clone CHUL5577, mRNA sequence.    52   0.015  1
EL474819|EL474819.1 CHUL2764.b1_G19.ab1 CHU(LMS) puzzle sunflower Helianthus paradoxus cDNA clone CHUL2764, mRNA sequence.    52   0.015  1
EL417200|EL417200.1 CHCL5738.b1_D20.ab1 CHC(LMS) Texas blueweed Helianthus ciliaris cDNA clone CHCL5738, mRNA sequence.    52   0.015  1
DY913902|DY913902.1 CHAX9334.b1_L05.ab1 CHA(XYZ) common wild sunflower Helianthus annuus cDNA clone CHAX9334, mRNA sequence.    52   0.015  1
DY913225|DY913225.1 CHAX8579.b1_F09.ab1 CHA(XYZ) common wild sunflower Helianthus annuus cDNA clone CHAX8579, mRNA sequence.    52   0.015  1
DY906162|DY906162.1 CHAX1327.b1_N19.ab1 CHA(XYZ) common wild sunflower Helianthus annuus cDNA clone CHAX1327, mRNA sequence.    52   0.015  1
DY903778|DY903778.1 CHAX10048.b1_O15.ab1 CHA(XYZ) common wild sunflower Helianthus annuus cDNA clone CHAX10048, mRNA sequence.    52   0.015  1
DY903739|DY903739.1 CHAX10007.b1_M05.ab1 CHA(XYZ) common wild sunflower Helianthus annuus cDNA clone CHAX10007, mRNA sequence.    52   0.015  1
EL577358|EL577358.1 Physarum08392 Physarum polycephalum starvation stress library Physarum polycephalum cDNA clone PpolyN1d98f05.t7, mRNA sequence.    48   0.23   1
EL576847|EL576847.1 Physarum08401 Physarum polycephalum starvation stress library Physarum polycephalum cDNA clone PpolyN1d92d02.t7, mRNA sequence.    48   0.23   1
dna update 2007. 8.18
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54X95) RecName: Full=Probable methionyl-tRNA synthetase, cytop...   117   3e-46
(Q74MZ1) RecName: Full=Methionyl-tRNA synthetase;          EC=6....    65   1e-09
EU016618_22(EU016618|pid:none) Uncultured marine microorganism H...    61   1e-08
(Q5JDZ7) RecName: Full=Methionyl-tRNA synthetase;          EC=6....    61   1e-08
CP001398_1512(CP001398|pid:none) Thermococcus gammatolerans EJ3,...    59   5e-08
AP008971_544(AP008971|pid:none) Finegoldia magna ATCC 29328 DNA,...    59   7e-08
(Q9SVN5) RecName: Full=Probable methionyl-tRNA synthetase;      ...    58   9e-08
(O58721) RecName: Full=Methionyl-tRNA synthetase;          EC=6....    58   1e-07
EF087797_1(EF087797|pid:none) Picea sitchensis clone WS02751_K20...    56   4e-07
(P23395) RecName: Full=Methionyl-tRNA synthetase;          EC=6....    55   6e-07
protein update 2009. 6.30
PSORT 

 psg: 0.87  gvh: 0.36  alm: 0.44  top: 0.73  tms: 0.00  mit: 0.25  mip: 0.05
 nuc: 0.00  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 

	 40.0 %: nuclear
	 24.0 %: cytoplasmic
	 16.0 %: cytoskeletal
	 16.0 %: mitochondrial
	  4.0 %: peroxisomal

>> prediction for VHE489 is nuc
5' end seq. ID VHE489F
5' end seq. 
>VHE489F.Seq
AAGCATTATCAGANGGATGTNCACCNAAAGAGANTTGTGANAAATATCATGANATTCATA
AAGAGATTTATGAATGGTTTAATATTTCATTNGATAAATTTGGNNNNNNNNNN
Length of 5' end seq. 113
3' end seq. ID VHE489Z
3' end seq. 
>VHE489Z.Seq
NNNNNNNNNNGAGGTNAATGATCATCCATCCGCAGAGAATTTATATGTAATTAAATTAAG
TTTAGGTGGTGATCAAACTAAAACCGCAGTTTCAGGTATTAAAGCNAACTTTGAAAAATC
CCAACTCATTGGTAAGAAANTGGCTGTAGTATTAAATTTGAAACCTTCAAAATTCAAAGG
TGTTCTCTCCTGAAGCAATGATTCTTGNTGCTGATGATGGTCAAGCCANTAAAGAAAGTT
TATCATTCTTGGTACCATCAAATCCACAATCAATTGAAGCTGGTTCAAAATATTGCCGGT
AAAGGTATGTCAATTAAACCAAAACCAACAATAGATTATCAAAAAGAATTCCTTCATTAN
G
Length of 3' end seq. 361
Connected seq. ID VHE489P
Connected seq. 
>VHE489P.Seq
AAGCATTATCAGANGGATGTNCACCNAAAGAGANTTGTGANAAATATCATGANATTCATA
AAGAGATTTATGAATGGTTTAATATTTCATTNGATAAATTTGG----------GAGGTNA
ATGATCATCCATCCGCAGAGAATTTATATGTAATTAAATTAAGTTTAGGTGGTGATCAAA
CTAAAACCGCAGTTTCAGGTATTAAAGCNAACTTTGAAAAATCCCAACTCATTGGTAAGA
AANTGGCTGTAGTATTAAATTTGAAACCTTCAAAATTCAAAGGTGTTCTCTCCTGAAGCA
ATGATTCTTGNTGCTGATGATGGTCAAGCCANTAAAGAAAGTTTATCATTCTTGGTACCA
TCAAATCCACAATCAATTGAAGCTGGTTCAAAATATTGCCGGTAAAGGTATGTCAATTAA
ACCAAAACCAACAATAGATTATCAAAAAGAATTCCTTCATTANG
Length of connected seq. 454
Full length Seq ID -
Full length Seq. -
Length of full length seq. -