VHD478
Library VH
(Link to library)
Clone ID VHD478
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11249-1
Original site URL
Representative seq. ID
(Link to Original site)
Representative DNA sequence
>VHD478 (VHD478Q) /CSM/VH/VHD4-D/VHD478Q.Seq.d/
AAAGAGATAAAATGCCCCAAAATAAAAGTCAAACAATAAAACTATCTCATTTTTTAAGAG
ATAATCTTCTTAACTATCCAGAATCAAAAATATTTAGAGAATTGATTCAAAATGCAGAAG
ATGCTCGAGCTGATACAGTXXXXXXXXXX
sequence update 2002.10.25
Translated Amino Acid sequence
RDKMPQNKSQTIKLSHFLRDNLLNYPESKIFRELIQNAEDARADT---


Translated Amino Acid sequence (All Frames)
Frame A:
keikcpkikvkq*nylif*eiifltiqnqkylen*fkmqkmleliq---


Frame B:
kr*napk*ksnnktisffkr*ss*lsrikni*ridskcrrcss*y---


Frame C:
RDKMPQNKSQTIKLSHFLRDNLLNYPESKIFRELIQNAEDARADT---


Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VHO809 (VHO809Q) /CSM/VH/VHO8-A/VHO809Q.Seq.d/ 276 8e-74
VHN647 (VHN647Q) /CSM/VH/VHN6-B/VHN647Q.Seq.d/ 276 8e-74
VHK810 (VHK810Q) /CSM/VH/VHK8-A/VHK810Q.Seq.d/ 276 8e-74
VHE123 (VHE123Q) /CSM/VH/VHE1-A/VHE123Q.Seq.d/ 276 8e-74
VHD478 (VHD478Q) /CSM/VH/VHD4-D/VHD478Q.Seq.d/ 276 8e-74
VHD239 (VHD239Q) /CSM/VH/VHD2-B/VHD239Q.Seq.d/ 276 8e-74
VHC102 (VHC102Q) /CSM/VH/VHC1-A/VHC102Q.Seq.d/ 276 8e-74
VHB767 (VHB767Q) /CSM/VH/VHB7-C/VHB767Q.Seq.d/ 276 8e-74
VHE271 (VHE271Q) /CSM/VH/VHE2-C/VHE271Q.Seq.d/ 260 5e-69
AHQ220 (AHQ220Q) /CSM/AH/AHQ2-A/AHQ220Q.Seq.d/ 260 5e-69

own update 2002.12.25
Homology vs DNA

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

ED245306|ED245306.1 AUAC-aaq90h10.g1 Ascaris suum whole genome shotgun library (PMAJ_4GSS) Ascaris suum genomic, genomic survey sequence. 52 0.004 1
BS000088|BS000088.1 Pan troglodytes chromosome 22 clone:RP43-078B15, map 22, complete sequences. 48 0.063 1
AP001687|AP001687.1 Homo sapiens genomic DNA, chromosome 21q, section 31/105. 48 0.063 1
AP000965|AP000965.2 Homo sapiens genomic DNA, chromosome 21q21.1-q21.2, clone:B875P4, LL56-APP region. 48 0.063 1
AC177404|AC177404.1 Strongylocentrotus purpuratus clone R3-1031H05, WORKING DRAFT SEQUENCE, 18 unordered pieces. 44 0.24 2
Z93778|Z93778.1 Caenorhabditis elegans Cosmid C31H5. 46 0.25 1
DU528531|DU528531.1 1098609917734 CHORI-243 Ovis aries genomic clone CH243-519K22, genomic survey sequence. 30 0.67 3
AC173602|AC173602.2 Bos taurus clone CH240-309F3, *** SEQUENCING IN PROGRESS ***, 6 unordered pieces. 38 0.88 3
CR526099|CR526099.1 Anopheles gambiae EST, clone AGAFM27TR. 44 0.99 1
CR526098|CR526098.1 Anopheles gambiae EST, clone AGAFM27TF. 44 0.99 1
dna update 2007. 5.17
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

CP001577_292(CP001577|pid:none) Micromonas sp. RCC299 chromosome... 39 0.044
AB006708_10(AB006708|pid:none) Arabidopsis thaliana genomic DNA,... 37 0.22
BC138482_1(BC138482|pid:none) Mus musculus sacsin, mRNA (cDNA cl... 35 0.63
(Q9NZJ4) RecName: Full=Sacsin; &AL157766_4(AL157766|pid:none) 35 0.63
(Q9JLC8) RecName: Full=Sacsin; 35 0.63
BC171956_1(BC171956|pid:none) Mus musculus sacsin, mRNA (cDNA cl... 35 0.63
AL732351_6(AL732351|pid:none) Oryza sativa genomic DNA, chromoso... 35 0.82
AL606457_18(AL606457|pid:none) Oryza sativa genomic DNA, chromos... 35 0.82
BC142916_1(BC142916|pid:none) Danio rerio hypothetical LOC555303... 32 5.3

protein update 2009. 6.29
PSORT

psg: 0.68 gvh: 0.39 alm: 0.64 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 %: mitochondrial
28.0 %: cytoplasmic
20.0 %: nuclear
12.0 %: cytoskeletal
4.0 %: peroxisomal

>> prediction for VHD478 is mit

5' end seq. ID VHD478F
5' end seq.
>VHD478F.Seq
AAAGAGATAAAATGCCCCAAAATAAAAGTCAAACAATAAAACTATCTCATTTTTTAAGAG
ATAATCTTCTTAACTATCCAGAATCAAAAATATTTAGAGAATTGATTCAAAATGCAGAAG
ATGCTCGAGCTGATACAGTNNNNNNNNNN
Length of 5' end seq. 149
3' end seq. ID -
3' end seq. -
Length of 3' end seq. -
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -