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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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
VSD536
Library VS
(Link to library)
Clone ID VSD536
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13202-1
Original site URL
Representative seq. ID VSD536F
(Link to Original site)
Representative DNA sequence 
>VSD536 (VSD536Q) /CSM/VS/VSD5-B/VSD536Q.Seq.d/
AGAAGAACAAACTGATCAATTCGATAATATTAAAGTTGGCCAATTATTAGGTTTCAAGAG
AAGTCCAAACAGACCAAAACTTCAAATTAAATCTTATGATCCATTAGGAGTTCAAATTCC
AACTTNTTTNAATGCTCAAACCAACTGGCCAAATTGTACTACCATTAGTCAGATTNAAAA
TCAAGCAAGATGTGGTTCTTGNTGGGCTTTTGGTGCTACAGAATCAXXXXXXXXXX
sequence update 2001. 3.22
Translated Amino Acid sequence 
EEQTDQFDNIKVGQLLGFKRSPNRPKLQIKSYDPLGVQIPTXXNAQTNWPNCTTISQIXN
QARCGSXWAFGATE---
Translated Amino Acid sequence (All Frames) 
Frame A:
rrtn*sir*y*swpiirfqekskqtktsn*il*sirssnsnxfxcsnqlaklyyh*sdxk
sskmwflxgfwcyri---


Frame B:
EEQTDQFDNIKVGQLLGFKRSPNRPKLQIKSYDPLGVQIPTXXNAQTNWPNCTTISQIXN
QARCGSXWAFGATE---


Frame C:
knklinsiilklany*vsrevqtdqnfklnlmih*efkfqlxxmlkptgqivlplvrxki
kqdvvlxgllvlqn---
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSD536 (VSD536Q) /CSM/VS/VSD5-B/VSD536Q.Seq.d/                        424   e-118
VSD136 (VSD136Q) /CSM/VS/VSD1-B/VSD136Q.Seq.d/                        424   e-118
VFO738 (VFO738Q) /CSM/VF/VFO7-B/VFO738Q.Seq.d/                        424   e-118
VFN645 (VFN645Q) /CSM/VF/VFN6-B/VFN645Q.Seq.d/                        424   e-118
VFK428 (VFK428Q) /CSM/VF/VFK4-B/VFK428Q.Seq.d/                        424   e-118
VFK376 (VFK376Q) /CSM/VF/VFK3-D/VFK376Q.Seq.d/                        424   e-118
VFJ345 (VFJ345Q) /CSM/VF/VFJ3-B/VFJ345Q.Seq.d/                        424   e-118
VFI438 (VFI438Q) /CSM/VF/VFI4-B/VFI438Q.Seq.d/                        424   e-118
VFI213 (VFI213Q) /CSM/VF/VFI2-A/VFI213Q.Seq.d/                        424   e-118
VFI120 (VFI120Q) /CSM/VF/VFI1-A/VFI120Q.Seq.d/                        424   e-118
own update 2001.11.29
Homology vs DNA 

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

CB292488|CB292488.1 UCRCS01_04cd07_b1 Washington Navel orange cold acclimated flavedo & albedo cDNA library Citrus sinensis cDNA clone UCRCS01_04cd07, mRNA sequence.    48  0.047  1
BF098253|BF098253.1 EST428862 tomato nutrient deficient roots Lycopersicon esculentum cDNA clone cLEW26B5 5' sequence, mRNA sequence.    48  0.047  1
AW647774|AW647774.1 EST326228 tomato germinating seedlings, TAMU Lycopersicon esculentum cDNA clone cLEI2A22 5', mRNA sequence.    48  0.047  1
BM413574|BM413574.1 EST587901 tomato breaker fruit Lycopersicon esculentum cDNA clone cLEG63F18 5' end, mRNA sequence.    48  0.047  1
BE353359|BE353359.1 EST353640 tomato flower buds 0-3 mm, Cornell University Lycopersicon esculentum cDNA clone cTOA18I21, mRNA sequence.    48  0.047  1
AI895519|AI895519.1 EST264962 tomato callus, TAMU Lycopersicon esculentum cDNA clone cLEC9E17, mRNA sequence.    48  0.047  1
BM411000|BM411000.1 EST585327 tomato breaker fruit Lycopersicon esculentum cDNA clone cLEG55G20 5' end, mRNA sequence.    48  0.047  1
BG889159|BG889159.1 EST515010 cSTD Solanum tuberosum cDNA clone cSTD13M7 5' sequence, mRNA sequence.    48  0.047  1
BE459071|BE459071.1 EST414363 tomato developing/immature green fruit Lycopersicon esculentum cDNA clone cLEM5M8, mRNA sequence.    48  0.047  1
BF187223|BF187223.1 EST443510 potato stolon, Cornell University Solanum tuberosum cDNA clone cSTA39F1 5' sequence, mRNA sequence.    48  0.047  1
dna update 2003. 8.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54QD9) RecName: Full=Cathepsin B;          EC=3.4.22.1; AltNam...   150   1e-35
AF083797_1(AF083797|pid:none) Arabidopsis thaliana clone sps897 ...    62   5e-09
AB377273_1(AB377273|pid:none) Raphanus sativus CatB mRNA for cat...    60   2e-08
AC149038_4(AC149038|pid:none) Medicago truncatula chromosome 7 c...    60   2e-08
AF104919_15(AF104919|pid:none) Arabidopsis thaliana BAC T15B16. ...    59   4e-08
AY838803_1(AY838803|pid:none) Periplaneta americana Parcxpwnx02 ...    59   5e-08
AY815730_1(AY815730|pid:none) Schistosoma japonicum clone SJCHGC...    58   1e-07
FN314850_1(FN314850|pid:none) Schistosoma japonicum isolate Anhu...    58   1e-07
FN314852_1(FN314852|pid:none) Schistosoma japonicum isolate Anhu...    58   1e-07
AY815473_1(AY815473|pid:none) Schistosoma japonicum clone SJCHGC...    58   1e-07
protein update 2009. 7.29
PSORT 

 psg: 0.75  gvh: 0.44  alm: 0.61  top: 0.53  tms: 0.00  mit: 0.13  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
	 16.0 %: mitochondrial
	  8.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: endoplasmic reticulum

>> prediction for VSD536 is cyt
5' end seq. ID VSD536F
5' end seq. 
>VSD536F.Seq
AGAAGAACAAACTGATCAATTCGATAATATTAAAGTTGGCCAATTATTAGGTTTCAAGAG
AAGTCCAAACAGACCAAAACTTCAAATTAAATCTTATGATCCATTAGGAGTTCAAATTCC
AACTTNTTTNAATGCTCAAACCAACTGGCCAAATTGTACTACCATTAGTCAGATTNAAAA
TCAAGCAAGATGTGGTTCTTGNTGGGCTTTTGGTGCTACAGAATCA----------
Length of 5' end seq. 226
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. -