VHD239
Library VH
(Link to library)
Clone ID VHD239
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11249-1|Contig-U12842-1
Original site URL
Representative seq. ID VHD239P
(Link to Original site)
Representative DNA sequence
>VHD239 (VHD239Q) /CSM/VH/VHD2-B/VHD239Q.Seq.d/
TTTTTAAAGAGATAAAATGCCCCAAAATAAAAGTCAAACAATAAAACTATCTCATTTTTT
AAGAGATAATCTTCTTAACTATCCAGAATCAAAAATATTTAGAGAATTGATTCAAAATGC
AGAAGATGCTCGAGCTGATACAGTCATAATAAAGGTTGATGAAGGCTCATATCCAAATAA
TGGGTTGTTAATTTCAAATGATAACCAAGAAATTGAAAGTTCAAAAGAATTATTAGGTCC
ATCAATTTTAATTTATAATAATGCAACTTTTCAAGAACATGATTGGGAAGGAATTTGTCA
AATTAGTCAAGGTAGTAAAAAAGAAAATTTAAAAAGTGTTGGCAATTTCGGTTTAGGTTG
GAACAGTGTTTATCATATAACAGATAATCCAATTGTTTATAGTGGTAATAATGTTTGGTT
CTCAGATCCAAACGAAAGAATGAGTGGTGGTTTATTCTTTGATTTAGATGACGAAGATGA
TTATAAGAAATGTTTTAGTTTTTTAGAGCCATTCATTCAATTTAAAGAATCAAATTGTAA
CCCAAAAGAATATTTTAATGGTACAATCATTCGTCTACCATTGAGAATATTTCCAAGTGA
AATCAAAAAAGGTGTATTGACAATGGATGCCATAAAGAAAATTTTAAATGAATXXXXXXX
XXXTATACTCATAGCTTTCTTTACACGAGTGATCAAGTCTATGATCTCTTATTCAAATAT
TATGGTAATAAGTTGGCCAAACATTTAAAATTTTCTACATTACCATTAAACTTTAGACAA
TTAATTTCATCAATTTGTAGAAATTATATAAATATTAGAGAAATTAAACTTTCAGATTTT
ATCACTAGTCTCAACTCCATCAACAACCTCCAATTTTTAAGTGATAGTATAATAACAATT
TGGAATTGTATCGATGAATTAAAAAGAAAAGAAACTTTAGAATTATCTCATATCCAATCA
TTACAAATTATCCCATATAGATTAAGTCCAACTGAAACTGATGTCACTAGTTTTGATAAA
TCTTCATTGTTAATGTACAAATCAAATTTCTTACCAATTGAACCAATCTTAAACAAACTA
AAAATCTATTTAATAAAAGAAGGACATCAAATCAATAGTTTATTAGATGGAAATGCTCAA
ATCCCAATTTTATTAGGCTATCTTCAAAGGGTAAATTTATCATTAGACTCAAAGGAAATC
GATAAATTAAGAATATTTTTAGTTGAATCAATGTTCCAAATTTCTTTATCACAAGATTAT
ACTTCAATTTTTTATAATTTACCAATTCACCCATGCATTGGAAATAGTAACCAAAAGTTT
AGTAGTATTACAACCAGTAGTTACTGTGTGGATTAGAAAAAATTGATCAATAGAAATTCC
AGGATTAAAATTAATAAAGGTTA
sequence update 2002.10.25
Translated Amino Acid sequence
f*RDKMPQNKSQTIKLSHFLRDNLLNYPESKIFRELIQNAEDARADTVIIKVDEGSYPNN
GLLISNDNQEIESSKELLGPSILIYNNATFQEHDWEGICQISQGSKKENLKSVGNFGLGW
NSVYHITDNPIVYSGNNVWFSDPNERMSGGLFFDLDDEDDYKKCFSFLEPFIQFKESNCN
PKEYFNGTIIRLPLRIFPSEIKKGVLTMDAIKKILNE---

---YTHSFLYTSDQVYDLLFKYYGNKLAKHLKFSTLPLNFRQLISSICRNYINIREIKLS
DFITSLNSINNLQFLSDSIITIWNCIDELKRKETLELSHIQSLQIIPYRLSPTETDVTSF
DKSSLLMYKSNFLPIEPILNKLKIYLIKEGHQINSLLDGNAQIPILLGYLQRVNLSLDSK
EIDKLRIFLVESMFQISLSQDYTSIFYNLPIHPCIGNSNQKFSSITTSSYCVD*kklinr
nsrikinkg


Translated Amino Acid sequence (All Frames)
Frame A:
flkr*napk*ksnnktisffkr*ss*lsrikni*ridskcrrcss*yshnkg**rlisk*
wvvnfk**prn*kfkriirsinfnl**cnfsrt*lgrnlsn*sr**krkfkkcwqfrfrl
eqclsynr*sncl*w**clvlrskrknewwfil*fr*rr*l*emf*ffraihsi*rikl*
pkrif*wynhsstienisk*nqkrcidngchkenfk*---

---YTHSFLYTSDQVYDLLFKYYGNKLAKHLKFSTLPLNFRQLISSICRNYINIREIKLS
DFITSLNSINNLQFLSDSIITIWNCIDELKRKETLELSHIQSLQIIPYRLSPTETDVTSF
DKSSLLMYKSNFLPIEPILNKLKIYLIKEGHQINSLLDGNAQIPILLGYLQRVNLSLDSK
EIDKLRIFLVESMFQISLSQDYTSIFYNLPIHPCIGNSNQKFSSITTSSYCVD*kklinr
nsrikinkg

Frame B:
f*RDKMPQNKSQTIKLSHFLRDNLLNYPESKIFRELIQNAEDARADTVIIKVDEGSYPNN
GLLISNDNQEIESSKELLGPSILIYNNATFQEHDWEGICQISQGSKKENLKSVGNFGLGW
NSVYHITDNPIVYSGNNVWFSDPNERMSGGLFFDLDDEDDYKKCFSFLEPFIQFKESNCN
PKEYFNGTIIRLPLRIFPSEIKKGVLTMDAIKKILNE---

---iliafftrviksmisysnimviswpni*nflhyh*tldn*fhqfveii*ileklnfq
ilslvstpsttsnf*viv**qfgivsmn*kekkl*nylisnhyklshid*vqlklmslvl
inlhc*ctnqisyqlnqs*tn*ksi**kkdiksivy*memlksqfy*aifkg*iyh*tqr
ksin*eyf*lnqcskflyhkiilqffiiyqfthaleivtkslvvlqpvvtvwirkn*sie
ipglklikv

Frame C:
fkeikcpkikvkq*nylif*eiifltiqnqkylen*fkmqkmleliqs**rlmkahiqim
gc*fqmitkklkvqkny*vhqf*fiimqlfknmigkefvklvkvvkkki*kvlaisv*vg
tvfii*qiiqlfivvimfgsqiqtke*vvvysli*mtkmiirnvlvf*shsfnlknqivt
qknilmvqsfvyh*eyfqvkskkvy*qwmp*rkf*mn---

---ys*lslhe*ssl*sliqilw**vgqtfkifyitikl*tinfinl*klyky*rn*tfr
fyh*sqlhqqppifk**ynnnlelyr*ikkkrnfriisypiitnypi*iksn*n*ch*f*
*ifivnvqikfltn*tnlkqtknlfnkrrtsnq*firwkcsnpnfirlsskgkfiirlkg
nr*iknifs*invpnffitrlyfnfl*ftnspmhwk**pkv**yynq*llcglekidq*k
fqd*n**rl

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VHD239 (VHD239Q) /CSM/VH/VHD2-B/VHD239Q.Seq.d/ 2058 0.0
VHE123 (VHE123Q) /CSM/VH/VHE1-A/VHE123Q.Seq.d/ 1439 0.0
VHO809 (VHO809Q) /CSM/VH/VHO8-A/VHO809Q.Seq.d/ 1413 0.0
VHB767 (VHB767Q) /CSM/VH/VHB7-C/VHB767Q.Seq.d/ 1413 0.0
VHK810 (VHK810Q) /CSM/VH/VHK8-A/VHK810Q.Seq.d/ 1409 0.0
VHK791 (VHK791Q) /CSM/VH/VHK7-D/VHK791Q.Seq.d/ 1326 0.0
VFN211 (VFN211Q) /CSM/VF/VFN2-A/VFN211Q.Seq.d/ 1176 0.0
VHN647 (VHN647Q) /CSM/VH/VHN6-B/VHN647Q.Seq.d/ 626 e-178
VHC102 (VHC102Q) /CSM/VH/VHC1-A/VHC102Q.Seq.d/ 626 e-178
VHE271 (VHE271Q) /CSM/VH/VHE2-C/VHE271Q.Seq.d/ 601 e-170

own update 2004.12.24
Homology vs DNA

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

AE017263|AE017263.1 Mesoplasma florum L1 complete genome. 32 2e-04 24
AE009951|AE009951.2 Fusobacterium nucleatum subsp. nucleatum ATCC 25586, complete genome. 36 0.002 19
CP000102|CP000102.1 Methanosphaera stadtmanae DSM 3091, complete genome. 44 0.002 19
AC116305|AC116305.2 Dictyostelium discoideum chromosome 2 map 1005175-1418323 strain AX4, complete sequence. 32 0.004 18
CU271466|CU271466.1 Equus caballus GSS, BAC clone CH241-426B21, SP6 end sequence. 36 0.007 3
CU054628|CU054628.1 Equus caballus GSS, BAC clone CH241-155P22, SP6 end sequence. 36 0.010 3
AE017332|AE017332.1 Mycoplasma hyopneumoniae 232, complete genome. 36 0.011 23
AE017308|AE017308.1 Mycoplasma mobile 163K complete genome. 32 0.011 26
AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence. 36 0.015 18
CP000263|CP000263.1 Buchnera aphidicola str. Cc (Cinara cedri), complete genome. 32 0.018 20
dna update 2007. 5.10
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

BC171956_1(BC171956|pid:none) Mus musculus sacsin, mRNA (cDNA cl... 112 3e-23
BC138482_1(BC138482|pid:none) Mus musculus sacsin, mRNA (cDNA cl... 112 4e-23
(Q9NZJ4) RecName: Full=Sacsin; &AL157766_4(AL157766|pid:none) 112 4e-23
(Q9JLC8) RecName: Full=Sacsin; 112 4e-23
BC142916_1(BC142916|pid:none) Danio rerio hypothetical LOC555303... 110 2e-22
CP001577_292(CP001577|pid:none) Micromonas sp. RCC299 chromosome... 107 1e-21
AB006708_10(AB006708|pid:none) Arabidopsis thaliana genomic DNA,... 100 1e-19
AL732351_6(AL732351|pid:none) Oryza sativa genomic DNA, chromoso... 92 3e-17
AL606457_18(AL606457|pid:none) Oryza sativa genomic DNA, chromos... 92 3e-17
CR749427_1(CR749427|pid:none) Homo sapiens mRNA; cDNA DKFZp686B1... 76 3e-12
protein update 2009. 6.28
PSORT

psg: 0.68 gvh: 0.39 alm: 0.45 top: 0.53 tms: 0.00 mit: 0.33 mip: 0.00
nuc: 0.00 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

36.0 %: cytoplasmic
32.0 %: nuclear
24.0 %: mitochondrial
4.0 %: vesicles of secretory system
4.0 %: peroxisomal

>> prediction for VHD239 is cyt

5' end seq. ID VHD239F
5' end seq.
>VHD239F.Seq
TTTTTAAAGAGATAAAATGCCCCAAAATAAAAGTCAAACAATAAAACTATCTCATTTTTT
AAGAGATAATCTTCTTAACTATCCAGAATCAAAAATATTTAGAGAATTGATTCAAAATGC
AGAAGATGCTCGAGCTGATACAGTCATAATAAAGGTTGATGAAGGCTCATATCCAAATAA
TGGGTTGTTAATTTCAAATGATAACCAAGAAATTGAAAGTTCAAAAGAATTATTAGGTCC
ATCAATTTTAATTTATAATAATGCAACTTTTCAAGAACATGATTGGGAAGGAATTTGTCA
AATTAGTCAAGGTAGTAAAAAAGAAAATTTAAAAAGTGTTGGCAATTTCGGTTTAGGTTG
GAACAGTGTTTATCATATAACAGATAATCCAATTGTTTATAGTGGTAATAATGTTTGGTT
CTCAGATCCAAACGAAAGAATGAGTGGTGGTTTATTCTTTGATTTAGATGACGAAGATGA
TTATAAGAAATGTTTTAGTTTTTTAGAGCCATTCATTCAATTTAAAGAATCAAATTGTAA
CCCAAAAGAATATTTTAATGGTACAATCATTCGTCTACCATTGAGAATATTTCCAAGTGA
AATCAAAAAAGGTGTATTGACAATGGATGCCATAAAGAAAATTTTAAATGAATNNNNNNN
NNN
Length of 5' end seq. 663
3' end seq. ID VHD239Z
3' end seq.
>VHD239Z.Seq
NNNNNNNNNNTATACTCATAGCTTTCTTTACACGAGTGATCAAGTCTATGATCTCTTATT
CAAATATTATGGTAATAAGTTGGCCAAACATTTAAAATTTTCTACATTACCATTAAACTT
TAGACAATTAATTTCATCAATTTGTAGAAATTATATAAATATTAGAGAAATTAAACTTTC
AGATTTTATCACTAGTCTCAACTCCATCAACAACCTCCAATTTTTAAGTGATAGTATAAT
AACAATTTGGAATTGTATCGATGAATTAAAAAGAAAAGAAACTTTAGAATTATCTCATAT
CCAATCATTACAAATTATCCCATATAGATTAAGTCCAACTGAAACTGATGTCACTAGTTT
TGATAAATCTTCATTGTTAATGTACAAATCAAATTTCTTACCAATTGAACCAATCTTAAA
CAAACTAAAAATCTATTTAATAAAAGAAGGACATCAAATCAATAGTTTATTAGATGGAAA
TGCTCAAATCCCAATTTTATTAGGCTATCTTCAAAGGGTAAATTTATCATTAGACTCAAA
GGAAATCGATAAATTAAGAATATTTTTAGTTGAATCAATGTTCCAAATTTCTTTATCACA
AGATTATACTTCAATTTTTTATAATTTACCAATTCACCCATGCATTGGAAATAGTAACCA
AAAGTTTAGTAGTATTACAACCAGTAGTTACTGTGTGGATTAGAAAAAATTGATCAATAG
AAATTCCAGGATTAAAATTAATAAAGGTTA
Length of 3' end seq. 750
Connected seq. ID VHD239P
Connected seq.
>VHD239P.Seq
TTTTTAAAGAGATAAAATGCCCCAAAATAAAAGTCAAACAATAAAACTATCTCATTTTTT
AAGAGATAATCTTCTTAACTATCCAGAATCAAAAATATTTAGAGAATTGATTCAAAATGC
AGAAGATGCTCGAGCTGATACAGTCATAATAAAGGTTGATGAAGGCTCATATCCAAATAA
TGGGTTGTTAATTTCAAATGATAACCAAGAAATTGAAAGTTCAAAAGAATTATTAGGTCC
ATCAATTTTAATTTATAATAATGCAACTTTTCAAGAACATGATTGGGAAGGAATTTGTCA
AATTAGTCAAGGTAGTAAAAAAGAAAATTTAAAAAGTGTTGGCAATTTCGGTTTAGGTTG
GAACAGTGTTTATCATATAACAGATAATCCAATTGTTTATAGTGGTAATAATGTTTGGTT
CTCAGATCCAAACGAAAGAATGAGTGGTGGTTTATTCTTTGATTTAGATGACGAAGATGA
TTATAAGAAATGTTTTAGTTTTTTAGAGCCATTCATTCAATTTAAAGAATCAAATTGTAA
CCCAAAAGAATATTTTAATGGTACAATCATTCGTCTACCATTGAGAATATTTCCAAGTGA
AATCAAAAAAGGTGTATTGACAATGGATGCCATAAAGAAAATTTTAAATGAAT-------
---TATACTCATAGCTTTCTTTACACGAGTGATCAAGTCTATGATCTCTTATTCAAATAT
TATGGTAATAAGTTGGCCAAACATTTAAAATTTTCTACATTACCATTAAACTTTAGACAA
TTAATTTCATCAATTTGTAGAAATTATATAAATATTAGAGAAATTAAACTTTCAGATTTT
ATCACTAGTCTCAACTCCATCAACAACCTCCAATTTTTAAGTGATAGTATAATAACAATT
TGGAATTGTATCGATGAATTAAAAAGAAAAGAAACTTTAGAATTATCTCATATCCAATCA
TTACAAATTATCCCATATAGATTAAGTCCAACTGAAACTGATGTCACTAGTTTTGATAAA
TCTTCATTGTTAATGTACAAATCAAATTTCTTACCAATTGAACCAATCTTAAACAAACTA
AAAATCTATTTAATAAAAGAAGGACATCAAATCAATAGTTTATTAGATGGAAATGCTCAA
ATCCCAATTTTATTAGGCTATCTTCAAAGGGTAAATTTATCATTAGACTCAAAGGAAATC
GATAAATTAAGAATATTTTTAGTTGAATCAATGTTCCAAATTTCTTTATCACAAGATTAT
ACTTCAATTTTTTATAATTTACCAATTCACCCATGCATTGGAAATAGTAACCAAAAGTTT
AGTAGTATTACAACCAGTAGTTACTGTGTGGATTAGAAAAAATTGATCAATAGAAATTCC
AGGATTAAAATTAATAAAGGTTA
Length of connected seq. 1393
Full length Seq ID -
Full length Seq. -
Length of full length seq. -