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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
VHD416
Library VH
(Link to library)
Clone ID VHD416
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16236-1
Original site URL
Representative seq. ID VHD416P
(Link to Original site)
Representative DNA sequence 
>VHD416 (VHD416Q) /CSM/VH/VHD4-A/VHD416Q.Seq.d/
AAAACAACAATTTGTACCAATACTACTATTATTTCTATTTGTAAAAATACTTTCTATCTT
TTAATATAATTTTAAATATTATCAACAACCCAAAAAAAAAATAAATAAATAAATAAATAT
AAAAATAAAAATGTTAATTGACGCTTTAACCAAACTCTCATTCGGNGCCAGTAAATCAAG
TGCTACCAAGGTTTCCTCCAAATCATCCACTGGTATTTCCTTTGGAAATAACAATGTAAC
ATGGAATGGTCTCCCACCACCACCACCACCACCACCATACCGTGATGCTCCANAANAANA
ATAATTGTAAACTATCTAAAAATAAATCACTCATCACAGAGCCAATGTATTTCAAATTNT
AAAAAAAAAAXXXXXXXXXXAAAACAACAATTTGTACCAATACTACTATTATTTCTATTT
GTAAAAATACTTTCTATCTTTTAATATAATTTTAAATATTATCAACAACCCAAAAAAAAA
ATAAATAAATAAATAAATATAAAAATAAAAATGTTAATTGACGCTTTAACCAAACTCTCA
TTCGGTGCCAGTAAATCAAGTGCTACCAAGGTTTCCTCCAAATCATCCACTGGTATTTCC
TTTGGAAATAACAATGTAACATGGAATGGTCTCCCACCACCACCACCACCACCACCATAC
CGTGATGCTCCAGAAGAAGAATAATTGTAAACTATCTAAAAATAAATCACTCATCACAGA
GCCAATGTATTTCAAAATA
sequence update 2002.10.25
Translated Amino Acid sequence 
kttictnttiisickntfylli*f*ilsttqkknk*inkyknknvn*rfnqtlirxq*ik
cyqgflqiihwyflwk*qcnmewsptttttttip*CSXXXIIVNYLKINHSSQSQCISNX
KKK---

---KTTICTNTTIISICKNTFYLLI*f*ilsttqkknk*inkyknknvn*rfnqtlircq
*ikcyqgflqiihwyflwk*qcnmewsptttttttip*csrrriivnylkinhssqsqci
sk
Translated Amino Acid sequence (All Frames) 
Frame A:
kttictnttiisickntfylli*f*ilsttqkknk*inkyknknvn*rfnqtlirxq*ik
cyqgflqiihwyflwk*qcnmewsptttttttip*CSXXXIIVNYLKINHSSQSQCISNX
KKK---

---KTTICTNTTIISICKNTFYLLI*f*ilsttqkknk*inkyknknvn*rfnqtlircq
*ikcyqgflqiihwyflwk*qcnmewsptttttttip*csrrriivnylkinhssqsqci
sk

Frame B:
kqqfvpilllflfvkilsif*ynfkyyqqpkkkink*inikikmlidaltklsfgaskss
atkvssksstgisfgnnnvtwnglppppppppyrdapxxx*l*ti*k*ithhranvfqix
kkk---

---kqqfvpilllflfvkilsif*ynfkyyqqpkkkink*inikikmlidaltklsfgas
kssatkvssksstgisfgnnnvtwnglppppppppyrdapeee*l*ti*k*ithhranvf
qn

Frame C:
nnnlyqyyyyfyl*kyflsfniilniinnpkkk*ink*i*k*kc*ltl*pnshsxpvnqv
lprfppnhplvfpleitm*hgmvshhhhhhhhtvmlxxxnncklsknkslitepmyfkx*
kk---

---nnnlyqyyyyfyl*kyflsfniilniinnpkkk*ink*i*k*kc*ltl*pnshsvpv
nqvlprfppnhplvfpleitm*hgmvshhhhhhhhtvmlqkknncklsknkslitepmyf
ki
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSB825 (VSB825Q) /CSM/VS/VSB8-B/VSB825Q.Seq.d/                        242   6e-63
VHD416 (VHD416Q) /CSM/VH/VHD4-A/VHD416Q.Seq.d/                        242   6e-63
SLE471 (SLE471Q) /CSM/SL/SLE4-C/SLE471Q.Seq.d/                        240   3e-62
VSG893 (VSG893Q) /CSM/VS/VSG8-D/VSG893Q.Seq.d/                        218   9e-56
VSE788 (VSE788Q) /CSM/VS/VSE7-D/VSE788Q.Seq.d/                        218   9e-56
SSH687 (SSH687Q) /CSM/SS/SSH6-D/SSH687Q.Seq.d/                        218   9e-56
CHN215 (CHN215Q) /CSM/CH/CHN2-A/CHN215Q.Seq.d/                        218   9e-56
VHP243 (VHP243Q) /CSM/VH/VHP2-B/VHP243Q.Seq.d/                        180   2e-44
VSI249 (VSI249Q) /CSM/VS/VSI2-C/VSI249Q.Seq.d/                        151   2e-35
VSD829 (VSD829Q) /CSM/VS/VSD8-B/VSD829Q.Seq.d/                         40   0.047
own update 2004.12.24
Homology vs DNA 

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

CP000205|CP000205.1 Drosophila melanogaster genomic scaffold 211000022280759.    44   0.003  3
CK350730|CK350730.1 hggfha28E11 Gland Cell LD PCR cDNA Library Heterodera glycines cDNA, mRNA sequence.    38   0.012  2
CR942806|CR942806.6 Drosophila DNA sequence from clone BACR-16A01.    44   0.013  3
AE014852|AE014852.2 Plasmodium falciparum 3D7 chromosome 12, section 9 of 9 of the complete sequence.    38   0.047  7
AC006279|AC006279.8 Plasmodium falciparum chromosome 12 clone 3D7, *** SEQUENCING IN PROGRESS ***, 5 unordered pieces.    38   0.18   6
CT027621|CT027621.3 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone  CH211-1K1.    40   0.19   2
AC115086|AC115086.1 Homo sapiens chromosome 18 clone RP11-194J18 map 18, LOW-PASS SEQUENCE SAMPLING.    36   0.27   4
AC184224|AC184224.1 Strongylocentrotus purpuratus clone R3-3051A22, WORKING DRAFT SEQUENCE, 13 unordered pieces.    34   0.27   6
DC228527|DC228527.1 Plasmodium berghei strain ANKA cDNA clone:SG012566, salivary grand sporozoite 5'-EST.    42   0.34   2
AM448037|AM448037.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X045012.8, clone ENTAV 115.    48   0.36   1
dna update 2007. 5.16
Homology vs Protein 

 ***** No hits found ******

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3204285
Number of Hits to DB: 829,528,811
protein update 2009. 6.29
PSORT 

 psg: 0.87  gvh: 0.38  alm: 0.46  top: 0.63  tms: 0.00  mit: 0.47  mip: 0.00
 nuc: 0.04  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 

	 68.0 %: mitochondrial
	 12.0 %: nuclear
	  8.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane
	  4.0 %: peroxisomal

>> prediction for VHD416 is mit
5' end seq. ID VHD416F
5' end seq. 
>VHD416F.Seq
AAAACAACAATTTGTACCAATACTACTATTATTTCTATTTGTAAAAATACTTTCTATCTT
TTAATATAATTTTAAATATTATCAACAACCCAAAAAAAAAATAAATAAATAAATAAATAT
AAAAATAAAAATGTTAATTGACGCTTTAACCAAACTCTCATTCGGNGCCAGTAAATCAAG
TGCTACCAAGGTTTCCTCCAAATCATCCACTGGTATTTCCTTTGGAAATAACAATGTAAC
ATGGAATGGTCTCCCACCACCACCACCACCACCACCATACCGTGATGCTCCANAANAANA
ATAATTGTAAACTATCTAAAAATAAATCACTCATCACAGAGCCAATGTATTTCAAATTNT
AAAAAAAAAANNNNNNNNNN
Length of 5' end seq. 380
3' end seq. ID VHD416Z
3' end seq. 
>VHD416Z.Seq
NNNNNNNNNNAAAACAACAATTTGTACCAATACTACTATTATTTCTATTTGTAAAAATAC
TTTCTATCTTTTAATATAATTTTAAATATTATCAACAACCCAAAAAAAAAATAAATAAAT
AAATAAATATAAAAATAAAAATGTTAATTGACGCTTTAACCAAACTCTCATTCGGTGCCA
GTAAATCAAGTGCTACCAAGGTTTCCTCCAAATCATCCACTGGTATTTCCTTTGGAAATA
ACAATGTAACATGGAATGGTCTCCCACCACCACCACCACCACCACCATACCGTGATGCTC
CAGAAGAAGAATAATTGTAAACTATCTAAAAATAAATCACTCATCACAGAGCCAATGTAT
TTCAAAATA
Length of 3' end seq. 369
Connected seq. ID VHD416P
Connected seq. 
>VHD416P.Seq
AAAACAACAATTTGTACCAATACTACTATTATTTCTATTTGTAAAAATACTTTCTATCTT
TTAATATAATTTTAAATATTATCAACAACCCAAAAAAAAAATAAATAAATAAATAAATAT
AAAAATAAAAATGTTAATTGACGCTTTAACCAAACTCTCATTCGGNGCCAGTAAATCAAG
TGCTACCAAGGTTTCCTCCAAATCATCCACTGGTATTTCCTTTGGAAATAACAATGTAAC
ATGGAATGGTCTCCCACCACCACCACCACCACCACCATACCGTGATGCTCCANAANAANA
ATAATTGTAAACTATCTAAAAATAAATCACTCATCACAGAGCCAATGTATTTCAAATTNT
AAAAAAAAAA----------AAAACAACAATTTGTACCAATACTACTATTATTTCTATTT
GTAAAAATACTTTCTATCTTTTAATATAATTTTAAATATTATCAACAACCCAAAAAAAAA
ATAAATAAATAAATAAATATAAAAATAAAAATGTTAATTGACGCTTTAACCAAACTCTCA
TTCGGTGCCAGTAAATCAAGTGCTACCAAGGTTTCCTCCAAATCATCCACTGGTATTTCC
TTTGGAAATAACAATGTAACATGGAATGGTCTCCCACCACCACCACCACCACCACCATAC
CGTGATGCTCCAGAAGAAGAATAATTGTAAACTATCTAAAAATAAATCACTCATCACAGA
GCCAATGTATTTCAAAATA
Length of connected seq. 729
Full length Seq ID -
Full length Seq. -
Length of full length seq. -