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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
VHF408
Library VH
(Link to library)
Clone ID VHF408
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U12390-1|Contig-U13635-1
Original site URL
Representative seq. ID VHF408P
(Link to Original site)
Representative DNA sequence 
>VHF408 (VHF408Q) /CSM/VH/VHF4-A/VHF408Q.Seq.d/
AATTTAAAAAAAAAAAAAAAANTAANTAANTAAAATAAATAAATAANTAAAATAANTAAN
TAAAAAAAAAAAAAAANTTTNTTTTTTTTTTTNAAAAAAAAAXXXXXXXXXXCACTTTTA
TAATTTCAAATAGTAGTGTACAAGGTAGTGGTGTAATTAATTCATCAATTTCATCAAATG
GTGGATCAAGTTATGGTAACGATACAATCACAAACTTGGATATTAATGGTAATTTAGAAT
CAAATGAAGATGAATTTATATTTACATTGGATGGTAAAAACTCTACAACTATTAATATTG
GTAATAATGCAACCATTACAAATGCTACTTTAATCATTAGAGTTAGTAATGATATTGTAA
ATTCAACCCAAAATACAACATTGGTAACAAGTTCAAATTTGGATGCAACNTTTTCAAAAA
TTGTTTTTCAATCATATGATCCAGAAACTGGAATTCAAAAACAATTGGATGATTGTGCTC
ATAAAATTAAAAATGATAAAGGTANTCTTGGATTATTATTAAATTCAAATGCTAAACAAT
GTGTAATAGTTTCCACTACAAGTAGTGGTACAGGTGGTGGCACAGGTGGTGGTACAGGTG
GTAGTACAGGTGGTGGTACAAGTGGTAGTACAGGTGGAGGTACAGGTGGTACAGGTGGAG
GTACAGGCCAAACTGTTGTGGTTGTTGAAGAAGATCAAAAGAGCTCATTAAGTGCTGGTG
CAATTGCTGGTATTATTGTAGGTATCGTTTGTGTTGCTGGTA
sequence update 2002.10.25
Translated Amino Acid sequence 
i*kkkkx*xxkink*xk*XXKKKKKXXFFFXKK---

---TFIISNSSVQGSGVINSSISSNGGSSYGNDTITNLDINGNLESNEDEFIFTLDGKNS
TTINIGNNATITNATLIIRVSNDIVNSTQNTTLVTSSNLDATFSKIVFQSYDPETGIQKQ
LDDCAHKIKNDKGXLGLLLNSNAKQCVIVSTTSSGTGGGTGGGTGGSTGGGTSGSTGGGT
GGTGGGTGQTVVVVEEDQKSSLSAGAIAGIIVGIVCVAG
Translated Amino Acid sequence (All Frames) 
Frame A:
nlkkkkkxxx*nk*ixkixx*kkkkxxfffxkkk---

---hfynfk**ctr*wcn*finfikwwiklw*rynhklgy*w*frik*r*iyiyigw*kl
yny*yw**cnhykcyfnh*s***yckfnpkynignkfkfgcnxfkncfsii*srnwnskt
ig*lcs*n*k**rxswiiikfkc*tmcnsfhyk*wyrwwhrwwyrw*yrwwykw*yrwry
rwyrwryrpnccgc*rrskelikcwcncwyycryrlccw

Frame B:
i*kkkkx*xxkink*xk*XXKKKKKXXFFFXKK---

---TFIISNSSVQGSGVINSSISSNGGSSYGNDTITNLDINGNLESNEDEFIFTLDGKNS
TTINIGNNATITNATLIIRVSNDIVNSTQNTTLVTSSNLDATFSKIVFQSYDPETGIQKQ
LDDCAHKIKNDKGXLGLLLNSNAKQCVIVSTTSSGTGGGTGGGTGGSTGGGTSGSTGGGT
GGTGGGTGQTVVVVEEDQKSSLSAGAIAGIIVGIVCVAG

Frame C:
fkkkkkxx*xk*inx*nx*xkkkkxfxfffxkk---

---ll*fqivvykvvv*lihqfhqmvdqvmvtiqsqtwilmvi*nqmkmnlylhwmvktl
qllilvimqplqmll*slelvmil*iqpkiqhw*qvqiwmqxfqklffnhmiqklefknn
wmivliklkmikvxldyy*iqmlnnv**fplqvvvqvvaqvvvqvvvqvvvqvvvqvevq
vvqvevqakllwllkkikrah*vlvqllvll*vsfvllv
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHK596 (VHK596Q) /CSM/VH/VHK5-D/VHK596Q.Seq.d/                        878   0.0
VHH794 (VHH794Q) /CSM/VH/VHH7-D/VHH794Q.Seq.d/                        878   0.0
VHH521 (VHH521Q) /CSM/VH/VHH5-A/VHH521Q.Seq.d/                        878   0.0
VHF408 (VHF408Q) /CSM/VH/VHF4-A/VHF408Q.Seq.d/                        878   0.0
VHE339 (VHE339Q) /CSM/VH/VHE3-B/VHE339Q.Seq.d/                        878   0.0
VHD329 (VHD329Q) /CSM/VH/VHD3-B/VHD329Q.Seq.d/                        878   0.0
VHC580 (VHC580Q) /CSM/VH/VHC5-D/VHC580Q.Seq.d/                        878   0.0
VHA340 (VHA340Q) /CSM/VH/VHA3-B/VHA340Q.Seq.d/                        878   0.0
VHL427 (VHL427Q) /CSM/VH/VHL4-B/VHL427Q.Seq.d/                        876   0.0
VHJ262 (VHJ262Q) /CSM/VH/VHJ2-C/VHJ262Q.Seq.d/                        870   0.0
own update 2004.12.24
Homology vs DNA 

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

(BJ443450) Dictyostelium discoideum cDNA clone:ddv52o23, 3' ...   884   0.0    2
(BJ441502) Dictyostelium discoideum cDNA clone:ddv46l23, 3' ...   884   0.0    2
(BJ441239) Dictyostelium discoideum cDNA clone:ddv46i05, 3' ...   884   0.0    2
(BJ439665) Dictyostelium discoideum cDNA clone:ddv41p02, 3' ...   884   0.0    2
(BJ439098) Dictyostelium discoideum cDNA clone:ddv39n09, 3' ...   884   0.0    2
(BJ438583) Dictyostelium discoideum cDNA clone:ddv37j07, 3' ...   884   0.0    2
(BJ438279) Dictyostelium discoideum cDNA clone:ddv36o19, 3' ...   884   0.0    2
(BJ443554) Dictyostelium discoideum cDNA clone:ddv53f08, 3' ...   882   0.0    2
(BJ442363) Dictyostelium discoideum cDNA clone:ddv49k16, 3' ...   876   0.0    2
(BJ436475) Dictyostelium discoideum cDNA clone:ddv31e08, 3' ...   872   0.0    2
dna update 2008.10.29
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BT050875_1(BT050875|pid:none) Medicago truncatula clone MTYF9_FA...    35   2.0
CP000647_1382(CP000647|pid:none) Klebsiella pneumoniae subsp. pn...    34   4.4
BT050940_1(BT050940|pid:none) Medicago truncatula clone MTYFD_FE...    33   7.5
BT050896_1(BT050896|pid:none) Medicago truncatula clone MTYF9_FA...    33   7.5
CP000568_3082(CP000568|pid:none) Clostridium thermocellum ATCC 2...    33   9.8
AY698035_1(AY698035|pid:none) Desmognathus marmoratus isolate 69...    33   9.8
protein update 2009. 3. 3
PSORT 

 psg: 0.69  gvh: 0.39  alm: 0.22  top: 0.67  tms: 0.07  mit: 0.29  mip: 0.00
 nuc: 0.08  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: 1.00  tyr: 0.00  leu: 0.02  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 

	 20.0 %: cytoplasmic
	 20.0 %: nuclear
	 16.0 %: vesicles of secretory system
	 12.0 %: mitochondrial
	  8.0 %: Golgi
	  8.0 %: endoplasmic reticulum
	  4.0 %: extracellular, including cell wall
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: plasma membrane

>> prediction for VHF408 is cyt
5' end seq. ID VHF408F
5' end seq. 
>VHF408F.Seq
AATTTAAAAAAAAAAAAAAAANTAANTAANTAAAATAAATAAATAANTAAAATAANTAAN
TAAAAAAAAAAAAAAANTTTNTTTTTTTTTTTNAAAAAAAAANNNNNNNNNN
Length of 5' end seq. 112
3' end seq. ID VHF408Z
3' end seq. 
>VHF408Z.Seq
NNNNNNNNNNCACTTTTATAATTTCAAATAGTAGTGTACAAGGTAGTGGTGTAATTAATT
CATCAATTTCATCAAATGGTGGATCAAGTTATGGTAACGATACAATCACAAACTTGGATA
TTAATGGTAATTTAGAATCAAATGAAGATGAATTTATATTTACATTGGATGGTAAAAACT
CTACAACTATTAATATTGGTAATAATGCAACCATTACAAATGCTACTTTAATCATTAGAG
TTAGTAATGATATTGTAAATTCAACCCAAAATACAACATTGGTAACAAGTTCAAATTTGG
ATGCAACNTTTTCAAAAATTGTTTTTCAATCATATGATCCAGAAACTGGAATTCAAAAAC
AATTGGATGATTGTGCTCATAAAATTAAAAATGATAAAGGTANTCTTGGATTATTATTAA
ATTCAAATGCTAAACAATGTGTAATAGTTTCCACTACAAGTAGTGGTACAGGTGGTGGCA
CAGGTGGTGGTACAGGTGGTAGTACAGGTGGTGGTACAAGTGGTAGTACAGGTGGAGGTA
CAGGTGGTACAGGTGGAGGTACAGGCCAAACTGTTGTGGTTGTTGAAGAAGATCAAAAGA
GCTCATTAAGTGCTGGTGCAATTGCTGGTATTATTGTAGGTATCGTTTGTGTTGCTGGTA
Length of 3' end seq. 660
Connected seq. ID VHF408P
Connected seq. 
>VHF408P.Seq
AATTTAAAAAAAAAAAAAAAANTAANTAANTAAAATAAATAAATAANTAAAATAANTAAN
TAAAAAAAAAAAAAAANTTTNTTTTTTTTTTTNAAAAAAAAA----------CACTTTTA
TAATTTCAAATAGTAGTGTACAAGGTAGTGGTGTAATTAATTCATCAATTTCATCAAATG
GTGGATCAAGTTATGGTAACGATACAATCACAAACTTGGATATTAATGGTAATTTAGAAT
CAAATGAAGATGAATTTATATTTACATTGGATGGTAAAAACTCTACAACTATTAATATTG
GTAATAATGCAACCATTACAAATGCTACTTTAATCATTAGAGTTAGTAATGATATTGTAA
ATTCAACCCAAAATACAACATTGGTAACAAGTTCAAATTTGGATGCAACNTTTTCAAAAA
TTGTTTTTCAATCATATGATCCAGAAACTGGAATTCAAAAACAATTGGATGATTGTGCTC
ATAAAATTAAAAATGATAAAGGTANTCTTGGATTATTATTAAATTCAAATGCTAAACAAT
GTGTAATAGTTTCCACTACAAGTAGTGGTACAGGTGGTGGCACAGGTGGTGGTACAGGTG
GTAGTACAGGTGGTGGTACAAGTGGTAGTACAGGTGGAGGTACAGGTGGTACAGGTGGAG
GTACAGGCCAAACTGTTGTGGTTGTTGAAGAAGATCAAAAGAGCTCATTAAGTGCTGGTG
CAATTGCTGGTATTATTGTAGGTATCGTTTGTGTTGCTGGTA
Length of connected seq. 752
Full length Seq ID -
Full length Seq. -
Length of full length seq. -