VHA342
Library VH
(Link to library)
Clone ID VHA342
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16319-1
Original site URL
Representative seq. ID
(Link to Original site)
Representative DNA sequence
>VHA342 (VHA342Q) /CSM/VH/VHA3-B/VHA342Q.Seq.d/
XXXXXXXXXXCTTCGTTTCATTCGTANCTTTAAACAACAAGTCGATAGTGGTGTCATCAG
TNTGGATGAAAATAAATGGATTGCAATTGGTTCAAAGATTTTCACCTTTGTCAGTGAAAC
CATCAAAGCTTTGGCCGATATCAAATTGGCCGATCTTAGCTTTAGATTATACCTTCAAGC
ACTCCAAACCTTTGACCACTGTGGTTTAGTCTCTCGTGTCAAAGAATTGGCCATCAAGGC
TCTCTTAATCTTCCAAGAAGATATCGCCGATTTCAAAGCTCAAGTTATGGCCCTTCAATT
GTTAATCTCTACTCTCAATAGTTTAAGCATTCCAAATGAAGAGATCTATGAATCCTTGGC
CGCCCAAACCATTAAACAAGCTTCTCGTCTTCTCTTACCACAAGATCAAGCAAAACTCAT
CTCTACTTGTTCACATTTATTCTGGGTTGATAATCCTTCTCGTCAATATCAAAATCCAGA
CTCTGTATTACAAGCTCTCAAAAAAGCTCTCTCCATTATCAGTAATGAATCGAGTCCTGG
TCTTGGTACATTTGTTGACATTTTGAATGAATGTCTCTTCTATTGTGATAAAGAAACTGA
TGCTGTTCCAATTCAATTCGTTTCAGATTTGGTTGAATTAATTCGTACTACTCATGTTAA
AGAAGCTGATCCAGCATTACCATATTTACAAAATACTATCAAATACATTCAATC
sequence update 2002. 9.10
Translated Amino Acid sequence
---RFIRXFKQQVDSGVISXDENKWIAIGSKIFTFVSETIKALADIKLADLSFRLYLQAL
QTFDHCGLVSRVKELAIKALLIFQEDIADFKAQVMALQLLISTLNSLSIPNEEIYESLAA
QTIKQASRLLLPQDQAKLISTCSHLFWVDNPSRQYQNPDSVLQALKKALSIISNESSPGL
GTFVDILNECLFYCDKETDAVPIQFVSDLVELIRTTHVKEADPALPYLQNTIKYIQ


Translated Amino Acid sequence (All Frames)
Frame A:
---fvsfvxlnnksivvssvwmkinglqlvqrfsplsvkpsklwpisnwpilaldytfkh
skplttvv*slvsknwpsrls*sskkispisklklwpfnc*sllsiv*afqmkrsmnpwp
pkplnkllvfsyhkikqnssllvhiysgliillvnikiqtlyyklskklsplsvmnrvlv
lvhlltf*mnvssivikklmlfqfnsfqiwln*fvllmlkkliqhyhiykilsntfn


Frame B:
---sfhsxl*ttsr*wchqxg*k*mdcnwfkdfhlcq*nhqsfgryqigrs*l*iipsst
pnl*plwfslscqrighqgslnlprryrrfqsssygpsivnlysq*fkhsk*rdl*ilgr
pnh*tsfssslttrsskthlylftfilg**sfssisksrlcitssqksslhyq**iesws
wyic*hfe*mslll**rn*ccsnsirfrfg*insyysc*rs*ssitiftkyyqihsi


Frame C:
---RFIRXFKQQVDSGVISXDENKWIAIGSKIFTFVSETIKALADIKLADLSFRLYLQAL
QTFDHCGLVSRVKELAIKALLIFQEDIADFKAQVMALQLLISTLNSLSIPNEEIYESLAA
QTIKQASRLLLPQDQAKLISTCSHLFWVDNPSRQYQNPDSVLQALKKALSIISNESSPGL
GTFVDILNECLFYCDKETDAVPIQFVSDLVELIRTTHVKEADPALPYLQNTIKYIQ


Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VHA342 (VHA342Q) /CSM/VH/VHA3-B/VHA342Q.Seq.d/ 1384 0.0
VHK662 (VHK662Q) /CSM/VH/VHK6-C/VHK662Q.Seq.d/ 1376 0.0
VHI583 (VHI583Q) /CSM/VH/VHI5-D/VHI583Q.Seq.d/ 1376 0.0
CFF491 (CFF491Q) /CSM/CF/CFF4-D/CFF491Q.Seq.d/ 1376 0.0
AHA519 (AHA519Q) /CSM/AH/AHA5-A/AHA519Q.Seq.d/ 1376 0.0
VHJ813 (VHJ813Q) /CSM/VH/VHJ8-A/VHJ813Q.Seq.d/ 1374 0.0
VHH532 (VHH532Q) /CSM/VH/VHH5-B/VHH532Q.Seq.d/ 1370 0.0
AHO859 (AHO859Q) /CSM/AH/AHO8-C/AHO859Q.Seq.d/ 1370 0.0
VHI863 (VHI863Q) /CSM/VH/VHI8-C/VHI863Q.Seq.d/ 1368 0.0
AHH565 (AHH565Q) /CSM/AH/AHH5-C/AHH565Q.Seq.d/ 1362 0.0

own update 2004.12.24
Homology vs DNA

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

AM423433|AM423433.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X174301.7, clone ENTAV 115. 46 0.038 2
EB223488|EB223488.1 PEG002-C-104408-501 Normalized Pedal-Pleural Ganglia Aplysia californica cDNA clone PEG002-C-104408 5', mRNA sequence. 44 0.54 2
EB238172|EB238172.1 PEG003-C-223796-501 Normalized Pedal-Pleural Ganglia Aplysia californica cDNA clone PEG003-C-223796 5', mRNA sequence. 44 0.66 2
AQ304508|AQ304508.1 HS_2209_A2_F03_MR CIT Approved Human Genomic Sperm Library D Homo sapiens genomic clone Plate=2209 Col=6 Row=K, genomic survey sequence. 46 1.3 1
CU080495|CU080495.1 Equus caballus GSS, BAC clone CH241-174E19, SP6 end sequence. 46 1.3 1
AL050350|AL050350.14 Human DNA sequence from clone RP1-261K5 on chromosome 6q21-22.1. 46 1.3 1
BB534855|BB534855.2 Mus musculus 0 day neonate lung cDNA, RIKEN full-length enriched library, clone:E030040E10, 3' end partial sequence. 44 5.2 1
BV329327|BV329327.1 S241P642FB9.T0 IndiaGrayWolf Canis lupus STS genomic, sequence tagged site. 44 5.2 1
AC155037|AC155037.2 Bos taurus clone CH240-31F9, WORKING DRAFT SEQUENCE, 7 unordered pieces. 44 5.2 1
AC124767|AC124767.2 Mus musculus chromosome UNK clone RP23-206M12, WORKING DRAFT SEQUENCE, 3 unordered pieces. 44 5.2 1
dna update 2007. 3.14
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

(Q54C24) RecName: Full=Vacuolar sorting protein 35; 450 e-125
AC149634_2(AC149634|pid:none) Medicago truncatula clone mth2-5i1... 124 2e-27
AM425621_1(AM425621|pid:none) Vitis vinifera contig VV78X235801.... 123 6e-27
AB368490_1(AB368490|pid:none) Arabidopsis thaliana VPS35 mRNA fo... 122 8e-27
AC108906_23(AC108906|pid:none) Oryza sativa chromosome 3 BAC OSJ... 122 8e-27
AK227620_1(AK227620|pid:none) Arabidopsis thaliana mRNA for vacu... 122 8e-27
AF175265_1(AF175265|pid:none) Homo sapiens vacuolar sorting prot... 122 1e-26
AK223218_1(AK223218|pid:none) Homo sapiens mRNA for vacuolar pro... 122 1e-26
(Q9EQH3) RecName: Full=Vacuolar protein sorting-associated prote... 122 1e-26
E84556(E84556)probable vacuolar sorting-associated protein [impo... 122 1e-26
protein update 2009. 6.26
PSORT

psg: 0.66 gvh: 0.48 alm: 0.38 top: 0.53 tms: 0.00 mit: 0.30 mip: 0.02
nuc: 0.00 erl: 0.00 erm: 0.40 pox: 0.00 px2: 0.50 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
20.0 %: cytoplasmic
20.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: extracellular, including cell wall
4.0 %: endoplasmic reticulum

>> prediction for VHA342 is nuc

5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID VHA342Z
3' end seq.
>VHA342Z.Seq
NNNNNNNNNNCTTCGTTTCATTCGTANCTTTAAACAACAAGTCGATAGTGGTGTCATCAG
TNTGGATGAAAATAAATGGATTGCAATTGGTTCAAAGATTTTCACCTTTGTCAGTGAAAC
CATCAAAGCTTTGGCCGATATCAAATTGGCCGATCTTAGCTTTAGATTATACCTTCAAGC
ACTCCAAACCTTTGACCACTGTGGTTTAGTCTCTCGTGTCAAAGAATTGGCCATCAAGGC
TCTCTTAATCTTCCAAGAAGATATCGCCGATTTCAAAGCTCAAGTTATGGCCCTTCAATT
GTTAATCTCTACTCTCAATAGTTTAAGCATTCCAAATGAAGAGATCTATGAATCCTTGGC
CGCCCAAACCATTAAACAAGCTTCTCGTCTTCTCTTACCACAAGATCAAGCAAAACTCAT
CTCTACTTGTTCACATTTATTCTGGGTTGATAATCCTTCTCGTCAATATCAAAATCCAGA
CTCTGTATTACAAGCTCTCAAAAAAGCTCTCTCCATTATCAGTAATGAATCGAGTCCTGG
TCTTGGTACATTTGTTGACATTTTGAATGAATGTCTCTTCTATTGTGATAAAGAAACTGA
TGCTGTTCCAATTCAATTCGTTTCAGATTTGGTTGAATTAATTCGTACTACTCATGTTAA
AGAAGCTGATCCAGCATTACCATATTTACAAAATACTATCAAATACATTCAATC
Length of 3' end seq. 714
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -