VSD562
Library VS
(Link to library)
Clone ID VSD562
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U06506-1
Original site URL
Representative seq. ID VSD562F
(Link to Original site)
Representative DNA sequence
>VSD562 (VSD562Q) /CSM/VS/VSD5-C/VSD562Q.Seq.d/
AAATATTTATATATNACAATATAAAATGTCTAGTGTAGGATCAGGTTATGATTTATATGT
ATCAACATATTCACCAGATGGTAAATTATTTCAAGTAGATTATGCAAATAAAGCCGTTGA
AAATAGTGGTACACTCGTCGCAATTAAAGCAAAAGATGGTGTTGTTTTAGGTGTTGAGAA
ATTAGNCCCATCAAAAATGTTATGTTCAGGTTCAAATCGTNGAGTTCATCATATTGACAC
TCATGTTGGTGTTGCAATGGCAGGATTTTTAGCXXXXXXXXXX
sequence update 2001. 3.22
Translated Amino Acid sequence
NIYIXQYKMSSVGSGYDLYVSTYSPDGKLFQVDYANKAVENSGTLVAIKAKDGVVLGVEK
LXPSKMLCSGSNRXVHHIDTHVGVAMAGFL---


Translated Amino Acid sequence (All Frames)
Frame A:
kylyxti*nv*crirl*ficiniftrw*iissrlck*sr*k*wytrrn*skrwccfrc*e
ixpiknvmfrfksxsssy*hscwccngrif---


Frame B:
NIYIXQYKMSSVGSGYDLYVSTYSPDGKLFQVDYANKAVENSGTLVAIKAKDGVVLGVEK
LXPSKMLCSGSNRXVHHIDTHVGVAMAGFL---


Frame C:
ifiyxnikclv*dqvmiymyqhihqmvnyfk*imqikplkivvhssqlkqkmvlf*vlrn
*xhqkcyvqvqivefiiltlmlvlqwqdf*---


Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VSD562 (VSD562Q) /CSM/VS/VSD5-C/VSD562Q.Seq.d/ 523 e-148
VSI254 (VSI254Q) /CSM/VS/VSI2-C/VSI254Q.Seq.d/ 515 e-145
VSD162 (VSD162Q) /CSM/VS/VSD1-C/VSD162Q.Seq.d/ 515 e-145
VSH450 (VSH450Q) /CSM/VS/VSH4-C/VSH450Q.Seq.d/ 48 7e-05
VFJ709 (VFJ709Q) /CSM/VF/VFJ7-A/VFJ709Q.Seq.d/ 38 0.068
VFI306 (VFI306Q) /CSM/VF/VFI3-A/VFI306Q.Seq.d/ 38 0.068
VFB422 (VFB422Q) /CSM/VF/VFB4-A/VFB422Q.Seq.d/ 38 0.068
VFA481 (VFA481Q) /CSM/VF/VFA4-D/VFA481Q.Seq.d/ 38 0.068
VFA406 (VFA406Q) /CSM/VF/VFA4-A/VFA406Q.Seq.d/ 38 0.068
SFG154 (SFG154Q) /CSM/SF/SFG1-C/SFG154Q.Seq.d/ 38 0.068

own update 2001.11.29
Homology vs DNA

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

U61988|U61988.1 Dictyostelium discoideum PrtD (prtD) mRNA, complete cds. 507 e-140 1
BM165013|BM165013.1 EST567536 PyBS Plasmodium yoelii yoelii cDNA clone PYCMF50 5' end, mRNA sequence. 52 0.004 1
BM299878|BM299878.1 MCR047B06_24284 Ice plant Lambda Uni-Zap XR expression library, 48 hours NaCl treatment prescreened for removal of highly abundant transcripts Mesembryanthemum crystallinum cDNA clone MCR047B06 5, mRNA sequence. 48 0.057 1
AA875736|AA875736.1 L30-297T3 Ice plant Lambda Uni-Zap XR expression library, 30 hours NaCl treatment Mesembryanthemum crystallinum cDNA clone L30-297 5' similar to Proteasome 27 kDa subunit (multicatalytic endopeptidase complex, 27 kDa subunit), mRNA sequence. 48 0.057 1
AW266051|AW266051.1 L30-2725T3 Ice plant Lambda Uni-Zap XR expression library, 30 hours NaCl treatment Mesembryanthemum crystallinum cDNA clone L30-2725 5', mRNA sequence. 48 0.057 1
L22213|L22213.1 Dictyostelium discoideum proteasome DD5 gene, complete cds. 36 0.42 2
BI512201|BI512201.1 BB160008B10G03.5 Bee Brain Normalized Library, BB16 Apis mellifera cDNA clone BB160008B10G03 5', mRNA sequence. 44 0.89 1
BP185411|BP185411.1 Dugesia japonica cDNA, clone: 03700_HH, expressed in the head. 44 0.89 1
AW266195|AW266195.1 L30-2892T3 Ice plant Lambda Uni-Zap XR expression library, 30 hours NaCl treatment Mesembryanthemum crystallinum cDNA clone L30-2892 5', mRNA sequence. 44 0.89 1
BI512785|BI512785.1 BB160010A20A11.5 Bee Brain Normalized Library, BB16 Apis mellifera cDNA clone BB160010A20A11 5', mRNA sequence. 44 0.89 1
dna update 2003. 8.22
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

U61988_1(U61988|pid:none) Dictyostelium discoideum PrtD (prtD) m... 161 8e-39
(Q9LSU0) RecName: Full=Proteasome subunit alpha type-3; ... 115 6e-25
BT051697_1(BT051697|pid:none) Medicago truncatula clone MTYF5_F6... 115 6e-25
AP008211_1532(AP008211|pid:none) Oryza sativa (japonica cultivar... 114 8e-25
AC129718_6(AC129718|pid:none) Oryza sativa (japonica cultivar-gr... 114 8e-25
AJ291738_1(AJ291738|pid:none) Nicotiana tabacum mRNA for putativ... 114 8e-25
EU975033_1(EU975033|pid:none) Zea mays clone 465494 proteasome s... 114 1e-24
AM439232_1(AM439232|pid:none) Vitis vinifera contig VV78X220686.... 113 2e-24
DQ995513_2(DQ995513|pid:none) Hordeum vulgare clone 604d05_c-69 ... 112 3e-24
EF148113_1(EF148113|pid:none) Populus trichocarpa clone WS0127_L... 112 4e-24
protein update 2009. 7.29
PSORT

psg: 0.85 gvh: 0.40 alm: 0.43 top: 0.47 tms: 0.00 mit: 0.24 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

52.0 %: cytoplasmic
28.0 %: nuclear
8.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: vesicles of secretory system
4.0 %: endoplasmic reticulum

>> prediction for VSD562 is cyt

5' end seq. ID VSD562F
5' end seq.
>VSD562F.Seq
AAATATTTATATATNACAATATAAAATGTCTAGTGTAGGATCAGGTTATGATTTATATGT
ATCAACATATTCACCAGATGGTAAATTATTTCAAGTAGATTATGCAAATAAAGCCGTTGA
AAATAGTGGTACACTCGTCGCAATTAAAGCAAAAGATGGTGTTGTTTTAGGTGTTGAGAA
ATTAGNCCCATCAAAAATGTTATGTTCAGGTTCAAATCGTNGAGTTCATCATATTGACAC
TCATGTTGGTGTTGCAATGGCAGGATTTTTAGC----------
Length of 5' end seq. 273
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. -