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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
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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
VHC788
Library VH
(Link to library)
Clone ID VHC788
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U14779-1
Original site URL
Representative seq. ID
(Link to Original site)
Representative DNA sequence 
>VHC788 (VHC788Q) /CSM/VH/VHC7-D/VHC788Q.Seq.d/
XXXXXXXXXXATTACCATTCCATTGAAAATGACATAATAATAAAGTTGCAGCAGATGGTG
AAGTTTCTGTGATGGATGCAATTTTATCAATTTCAGAGAGTGCAGTTTTAACGATATCAA
CTGCTTGAATGCCTGTATTGGTTTTTGGGAATGCATCAACAACAGCGATATCANATTCAT
AGTCATCAACATCTTGATAATATTCATTTTCTTCATCGTAATCTTCATATTCATNATCNC
TGTTATATTCTTCAGATCCAGTANAGATTGTAATTGAACTTTTTATTCTTTTTCCAGANG
TNTTTAATTTACTATTACNTCTTGAAAATGGTGCTTGTGATGAGGTTGGNTTAGTTGTTG
AANNATTTTTATTTTGTGNGNATTCCATTGCAGNTGCTGCTTTATTCANACCTTCACCGA
AATGTGTATATATATAATCGANTGCTTTATCAATATCTTTCCAA
sequence update 2002. 9.10
Translated Amino Acid sequence 
---lpfh*k*hnnkvaadgevsvmdailsisesavltista*mpvlvfgnasttaisxs*
ssts**ysfsss*SSYSXSLLYSSDPVXIVIELFILFPXVFNLLLXLENGACDEVGLVVE
XFLFCXXSIAXAALFXPSPKCVYI*sxalsisfq
Translated Amino Acid sequence (All Frames) 
Frame A:
---lpfh*k*hnnkvaadgevsvmdailsisesavltista*mpvlvfgnasttaisxs*
ssts**ysfsss*SSYSXSLLYSSDPVXIVIELFILFPXVFNLLLXLENGACDEVGLVVE
XFLFCXXSIAXAALFXPSPKCVYI*sxalsisfq


Frame B:
---yhsiendiiiklqqmvkfl*wmqfyqfqrvqf*ryqlleclywflgmhqqqryxihs
hqhldnihflhrnlhihxxcyilqiqxrl*lnflfffqxxliyyyxlkmvlvmrlx*llx
xfyfvxiplqxllysxlhrnvyiynrxlyqyls


Frame C:
---tiplkmt***scsrw*sfcdgcnfinfrecsfndinclnacigfwecinnsdixfiv
iniliififfivififxixviffrssxdcn*tfysfsrxx*ftits*kwcl**gwxsc*x
ifilxxfhcxccfixtftemciyiixcfinifp
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHC788 (VHC788Q) /CSM/VH/VHC7-D/VHC788Q.Seq.d/                        811   0.0
VFI177 (VFI177Q) /CSM/VF/VFI1-D/VFI177Q.Seq.d/                         38   0.11
VFB244 (VFB244Q) /CSM/VF/VFB2-B/VFB244Q.Seq.d/                         38   0.11
SSE528 (SSE528Q) /CSM/SS/SSE5-B/SSE528Q.Seq.d/                         38   0.11
SHD827 (SHD827Q) /CSM/SH/SHD8-B/SHD827Q.Seq.d/                         38   0.11
SHA444 (SHA444Q) /CSM/SH/SHA4-B/SHA444Q.Seq.d/                         38   0.11
CHN786 (CHN786Q) /CSM/CH/CHN7-D/CHN786Q.Seq.d/                         38   0.11
AHQ875 (AHQ875Q) /CSM/AH/AHQ8-D/AHQ875Q.Seq.d/                         38   0.11
AHQ675 (AHQ675Q) /CSM/AH/AHQ6-D/AHQ675Q.Seq.d/                         38   0.11
AHQ629 (AHQ629Q) /CSM/AH/AHQ6-B/AHQ629Q.Seq.d/                         38   0.11
own update 2002.12.24
Homology vs DNA 

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

AC168989|AC168989.2 Bos taurus clone CH240-233N1, *** SEQUENCING IN PROGRESS ***, 6 unordered pieces.    50   0.056  1
CT809651|CT809651.1 Paramecium tetraurelia 5-PRIME EST from clone LK0AEA6YP17.    36   0.17   2
AP008934|AP008934.1 Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 DNA, complete genome.    40   0.74   8
AF404509|AF404509.2 Blueberry red ringspot virus, complete genome.    42   1.5    3
AC162792|AC162792.5 Mus musculus chromosome 7, clone RP24-187H10, complete sequence.    44   1.8    3
AC109227|AC109227.12 Mus musculus chromosome 7, clone RP23-396C19, complete sequence.    44   2.5    3
DY954766|DY954766.1 CHPZ2287.b1_N20.ab1 CHP(XYZ) plains sunflower Helianthus petiolaris cDNA clone CHPZ2287, mRNA sequence.    44   3.4    1
EJ468854|EJ468854.1 1095403397157 Global-Ocean-Sampling_GS-28-01-01-1P6-2P0KB marine metagenome genomic clone 1061005604125 3', genomic survey sequence.    44   3.4    1
DU529236|DU529236.1 1098609921384 CHORI-243 Ovis aries genomic clone CH243-508N2, genomic survey sequence.    44   3.4    1
DU259887|DU259887.1 1098574205105 CHORI-243 Ovis aries genomic clone CH243-450P3, genomic survey sequence.    44   3.4    1
dna update 2007. 5. 8
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: 449,162,364
protein update 2009. 6.28
PSORT 

 psg: 0.83  gvh: 0.58  alm: 0.23  top: 0.40  tms: 0.07  mit: 0.22  mip: 0.00
 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: 1.00  tyr: 0.62  leu: 0.31  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 1.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 24.0 %: endoplasmic reticulum
	 20.0 %: nuclear
	 20.0 %: cytoplasmic
	 16.0 %: Golgi
	 16.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for VHC788 is end
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID VHC788Z
3' end seq. 
>VHC788Z.Seq
NNNNNNNNNNATTACCATTCCATTGAAAATGACATAATAATAAAGTTGCAGCAGATGGTG
AAGTTTCTGTGATGGATGCAATTTTATCAATTTCAGAGAGTGCAGTTTTAACGATATCAA
CTGCTTGAATGCCTGTATTGGTTTTTGGGAATGCATCAACAACAGCGATATCANATTCAT
AGTCATCAACATCTTGATAATATTCATTTTCTTCATCGTAATCTTCATATTCATNATCNC
TGTTATATTCTTCAGATCCAGTANAGATTGTAATTGAACTTTTTATTCTTTTTCCAGANG
TNTTTAATTTACTATTACNTCTTGAAAATGGTGCTTGTGATGAGGTTGGNTTAGTTGTTG
AANNATTTTTATTTTGTGNGNATTCCATTGCAGNTGCTGCTTTATTCANACCTTCACCGA
AATGTGTATATATATAATCGANTGCTTTATCAATATCTTTCCAA
Length of 3' end seq. 464
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -