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Dicty_cDB
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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
VHE556
Library VH
(Link to library)
Clone ID VHE556
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U10840-1
Original site URL
Representative seq. ID VHE556P
(Link to Original site)
Representative DNA sequence 
>VHE556 (VHE556Q) /CSM/VH/VHE5-C/VHE556Q.Seq.d/
AATAGATTTTGTTATTTTAGTACAATCAATATTGNGTGTATATGTATAATAATTGNGTAT
ATTAGTGTATAATATATATCTATTTTTAAACAGATCACCNNTAAGAAAAAAATGAAAAGA
TCAGAAAAATCAAGTACATCTGTTGTTAGNAATAACAAACAACAAGATGTAAATATCATC
AGTTCAAATGAAGTTGGTGTTAAAGAAGAAAATAANGGACATCAAGAATTCTTATTAAAA
GTTTTAATTCTATCAGTCATTNATGTTTTAGCATTTTCAACTCGTTTATTCTCAGTATTA
CGTTATGAAAGTGTTATTCATGAATTTGATCCATATTTTAATTATANATCAACAATATAT
CTTGTNCAANAAGGNTTTTATAATTTTTTAAATTGGTTTGATGAAAGAGCATGGTATCCA
TTAGGACGTATTGTAGGTGGNACAATTTACCCAGGTTTAATGGCAACAGCAAGTTTAGTT
CATTGGTCATTGAATTCATTGAATATTACXXXXXXXXXXTATGTNTTGGTGGGATTATGG
TTATCAATTATATGCAATGGCCAATCGTACCGTATTGGTTGATAATNACACTTGGAACAA
TAGTCATATCGCTCAAGTTGGTAAAGCATTTGCATCCNCTGAAGAAGATGCTTACATACA
AATGAAAGCATTGGATGTCGATTATGTTTTAGTTATTTTTGGTGGTTTAACTGGTTACAG
TTCTGATGATATCAATAAATTCNTTTGGATGGTTAGAATTGGTGGTAGTTGTGATCCNAA
TATTAAAGAACAAGATTATCTCACCAATGGTCNATATAGAATAGATAAAGGTGCNTCNCC
AACAATGTTAAATTNTCTCATGTACNAACTTAGTTACTATCGTTTCTATGAAGTTCACTC
TGACTATCAAAGACCTNCAGGTTTCGATC
sequence update 2002.10.25
Translated Amino Acid sequence 
nrfcyfstinixciciiixyisv*YISIFKQITXKKKMKRSEKSSTSVVXNNKQQDVNII
SSNEVGVKEENXGHQEFLLKVLILSVIXVLAFSTRLFSVLRYESVIHEFDPYFNYXSTIY
LVQXGFYNFLNWFDERAWYPLGRIVGGTIYPGLMATASLVHWSLNSLNI---

---MXWWDYGYQLYAMANRTVLVDNXTWNNSHIAQVGKAFASXEEDAYIQMKALDVDYVL
VIFGGLTGYSSDDINKFXWMVRIGGSCDPNIKEQDYLTNGXYRIDKGASPTMLNXLMYXL
SYYRFYEVHSDYQRPXGFD
Translated Amino Acid sequence (All Frames) 
Frame A:
nrfcyfstinixciciiixyisv*YISIFKQITXKKKMKRSEKSSTSVVXNNKQQDVNII
SSNEVGVKEENXGHQEFLLKVLILSVIXVLAFSTRLFSVLRYESVIHEFDPYFNYXSTIY
LVQXGFYNFLNWFDERAWYPLGRIVGGTIYPGLMATASLVHWSLNSLNI---

---yvlvglwlsiicngqsyrig**xhleq*syrssw*sicix*rrclhtnesigcrlcf
syfwwfnwlqf**yq*ixldg*nww*l*sxy*rtrlshqwsi*nr*rcxxnnvkxshvxt
*llsfl*ssl*lsktxrfr

Frame B:
idfvilvqsilxvyv**lxilvyniylflnrspxrkk*kdqknqvhlllxitnnkm*iss
vqmklvlkkkixdiknsy*kf*fyqsxmf*hfqlvysqyyvmkvlfmnlihiliixqqyi
lxxkxfiif*iglmkehgih*dvl*vxqftqv*wqqqv*figh*ih*il---

---MXWWDYGYQLYAMANRTVLVDNXTWNNSHIAQVGKAFASXEEDAYIQMKALDVDYVL
VIFGGLTGYSSDDINKFXWMVRIGGSCDPNIKEQDYLTNGXYRIDKGASPTMLNXLMYXL
SYYRFYEVHSDYQRPXGFD

Frame C:
*illf*ynqyxvymynnxvy*ciiyiyf*tdhx*eknekirkikyicc*x*qttrckyhq
fk*swc*rrk*xtsriliksfnsishxcfsifnsfilsitl*kcys*i*sif*lxinnis
cxxrxl*ffklv**ksmvsirtycrwxnlprfngnskfsslviefieyy---

---cxggimvinymqwpivpywlixtlgtivislklvkhlhplkkmltyk*khwmsimf*
lflvv*lvtvlmisinsfgwlelvvvvixilknkiispmvxie*ikvxxqqc*ixsctnl
vtivsmkftltikdlqvsi
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHE556 (VHE556Q) /CSM/VH/VHE5-C/VHE556Q.Seq.d/                       1451   0.0
VHQ247 (VHQ247Q) /CSM/VH/VHQ2-B/VHQ247Q.Seq.d/                        739   0.0
VHQ183 (VHQ183Q) /CSM/VH/VHQ1-D/VHQ183Q.Seq.d/                        739   0.0
VHP877 (VHP877Q) /CSM/VH/VHP8-D/VHP877Q.Seq.d/                        739   0.0
VHP856 (VHP856Q) /CSM/VH/VHP8-C/VHP856Q.Seq.d/                        739   0.0
VHO701 (VHO701Q) /CSM/VH/VHO7-A/VHO701Q.Seq.d/                        739   0.0
VHO319 (VHO319Q) /CSM/VH/VHO3-A/VHO319Q.Seq.d/                        739   0.0
VHO282 (VHO282Q) /CSM/VH/VHO2-D/VHO282Q.Seq.d/                        739   0.0
VHN813 (VHN813Q) /CSM/VH/VHN8-A/VHN813Q.Seq.d/                        739   0.0
VHN769 (VHN769Q) /CSM/VH/VHN7-C/VHN769Q.Seq.d/                        739   0.0
own update 2004.12.24
Homology vs DNA 

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

CS494261|CS494261.1 Sequence 103 from Patent WO2007006911.         88   2e-25  4
AX799082|AX799082.1 Sequence 1 from Patent WO03054008.             88   2e-25  4
AY074880|AY074880.1 Homo sapiens source of immunodominant MHC-associated peptides (SIMP) mRNA, complete cds.    88   2e-25  4
BH161052|BH161052.1 ENTQZ29TR Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    78   4e-22  2
AZ546884|AZ546884.1 ENTEI54TR Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    78   5e-22  2
AM648058|AM648058.1 Entamoeba moshkovskii FIC GSS, clone mosh055c04.p1k.    86   1e-21  2
BU094108|BU094108.1 rf50d02.y2 Meloidogyne hapla J2 pAMP1 v1 Meloidogyne hapla cDNA 5' similar to SW:STT3_MOUSE P46978 OLIGOSACCHARYL TRANSFERASE STT3 SUBUNIT HOMOLOG ;, mRNA sequence.    74   3e-21  3
AZ546943|AZ546943.1 ENTEY38TF Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    68   4e-19  2
DB754673|DB754673.1 Apis mellifera head cDNA, RIKEN full-length enriched library, clone:BH10094B03, 5' end partial sequence.   105   2e-18  1
DB750415|DB750415.1 Apis mellifera head cDNA, RIKEN full-length enriched library, clone:BH10079C16, 5' end partial sequence.   105   2e-18  1
dna update 2007. 8.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC015446_5(AC015446|pid:none) Arabidopsis thaliana chromosome I ...   182   1e-44
AK229582_1(AK229582|pid:none) Arabidopsis thaliana mRNA for hypo...   182   1e-44
BT064584_1(BT064584|pid:none) Zea mays full-length cDNA clone ZM...   181   3e-44
AK295892_1(AK295892|pid:none) Homo sapiens cDNA FLJ58575 complet...   171   2e-41
L47337_1(L47337|pid:none) Homo sapiens transmembrane protein (TM...   171   2e-41
CQ834708_1(CQ834708|pid:none) Sequence 579 from Patent WO2004058...   171   2e-41
AY891653_1(AY891653|pid:none) Synthetic construct Homo sapiens c...   171   2e-41
L38961_1(L38961|pid:none) Human putative transmembrane protein p...   171   2e-41
CQ834710_1(CQ834710|pid:none) Sequence 581 from Patent WO2004058...   171   2e-41
(P46977) RecName: Full=Dolichyl-diphosphooligosaccharide--protei...   171   2e-41
protein update 2009. 6.30
PSORT 

 psg: 0.22  gvh: 0.21  alm: 0.22  top: 0.60  tms: 0.07  mit: 0.37  mip: 0.04
 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: 1.00  tyr: 0.00  leu: 0.02  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 1.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 48.0 %: nuclear
	 24.0 %: cytoplasmic
	  8.0 %: Golgi
	  8.0 %: mitochondrial
	  4.0 %: plasma membrane
	  4.0 %: vesicles of secretory system
	  4.0 %: endoplasmic reticulum

>> prediction for VHE556 is nuc
5' end seq. ID VHE556F
5' end seq. 
>VHE556F.Seq
AATAGATTTTGTTATTTTAGTACAATCAATATTGNGTGTATATGTATAATAATTGNGTAT
ATTAGTGTATAATATATATCTATTTTTAAACAGATCACCNNTAAGAAAAAAATGAAAAGA
TCAGAAAAATCAAGTACATCTGTTGTTAGNAATAACAAACAACAAGATGTAAATATCATC
AGTTCAAATGAAGTTGGTGTTAAAGAAGAAAATAANGGACATCAAGAATTCTTATTAAAA
GTTTTAATTCTATCAGTCATTNATGTTTTAGCATTTTCAACTCGTTTATTCTCAGTATTA
CGTTATGAAAGTGTTATTCATGAATTTGATCCATATTTTAATTATANATCAACAATATAT
CTTGTNCAANAAGGNTTTTATAATTTTTTAAATTGGTTTGATGAAAGAGCATGGTATCCA
TTAGGACGTATTGTAGGTGGNACAATTTACCCAGGTTTAATGGCAACAGCAAGTTTAGTT
CATTGGTCATTGAATTCATTGAATATTACNNNNNNNNNN
Length of 5' end seq. 519
3' end seq. ID VHE556Z
3' end seq. 
>VHE556Z.Seq
NNNNNNNNNNTATGTNTTGGTGGGATTATGGTTATCAATTATATGCAATGGCCAATCGTA
CCGTATTGGTTGATAATNACACTTGGAACAATAGTCATATCGCTCAAGTTGGTAAAGCAT
TTGCATCCNCTGAAGAAGATGCTTACATACAAATGAAAGCATTGGATGTCGATTATGTTT
TAGTTATTTTTGGTGGTTTAACTGGTTACAGTTCTGATGATATCAATAAATTCNTTTGGA
TGGTTAGAATTGGTGGTAGTTGTGATCCNAATATTAAAGAACAAGATTATCTCACCAATG
GTCNATATAGAATAGATAAAGGTGCNTCNCCAACAATGTTAAATTNTCTCATGTACNAAC
TTAGTTACTATCGTTTCTATGAAGTTCACTCTGACTATCAAAGACCTNCAGGTTTCGATC
Length of 3' end seq. 420
Connected seq. ID VHE556P
Connected seq. 
>VHE556P.Seq
AATAGATTTTGTTATTTTAGTACAATCAATATTGNGTGTATATGTATAATAATTGNGTAT
ATTAGTGTATAATATATATCTATTTTTAAACAGATCACCNNTAAGAAAAAAATGAAAAGA
TCAGAAAAATCAAGTACATCTGTTGTTAGNAATAACAAACAACAAGATGTAAATATCATC
AGTTCAAATGAAGTTGGTGTTAAAGAAGAAAATAANGGACATCAAGAATTCTTATTAAAA
GTTTTAATTCTATCAGTCATTNATGTTTTAGCATTTTCAACTCGTTTATTCTCAGTATTA
CGTTATGAAAGTGTTATTCATGAATTTGATCCATATTTTAATTATANATCAACAATATAT
CTTGTNCAANAAGGNTTTTATAATTTTTTAAATTGGTTTGATGAAAGAGCATGGTATCCA
TTAGGACGTATTGTAGGTGGNACAATTTACCCAGGTTTAATGGCAACAGCAAGTTTAGTT
CATTGGTCATTGAATTCATTGAATATTAC----------TATGTNTTGGTGGGATTATGG
TTATCAATTATATGCAATGGCCAATCGTACCGTATTGGTTGATAATNACACTTGGAACAA
TAGTCATATCGCTCAAGTTGGTAAAGCATTTGCATCCNCTGAAGAAGATGCTTACATACA
AATGAAAGCATTGGATGTCGATTATGTTTTAGTTATTTTTGGTGGTTTAACTGGTTACAG
TTCTGATGATATCAATAAATTCNTTTGGATGGTTAGAATTGGTGGTAGTTGTGATCCNAA
TATTAAAGAACAAGATTATCTCACCAATGGTCNATATAGAATAGATAAAGGTGCNTCNCC
AACAATGTTAAATTNTCTCATGTACNAACTTAGTTACTATCGTTTCTATGAAGTTCACTC
TGACTATCAAAGACCTNCAGGTTTCGATC
Length of connected seq. 919
Full length Seq ID -
Full length Seq. -
Length of full length seq. -