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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
VFC223
Library VF
(Link to library)
Clone ID VFC223
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U10989-1
Original site URL
Representative seq. ID VFC223P
(Link to Original site)
Representative DNA sequence 
>VFC223 (VFC223Q) /CSM/VF/VFC2-A/VFC223Q.Seq.d/
CTGTTGGCCTACTGGTTTTAAAAGNATAGCTCTTCAAATATCGAGTTATCATTAATTATT
GCAAGTGATGATGAAACACTTGAATTGGGTATTGATGAAAGTTACTTTTTATTAGTGAAT
CAAGACACTTATCAAATAAAAGCCAATACAATCTATGGTGCAATGAGAGGTTTAGAAACA
TTCAAACAAATGGTAGTTTATGGTGTTGTAGAAAATAGTTACTCATTGACATGTGCTGAA
GTTGTAGACTATCCAACCTATCAATGGAGAGGATTGTTGGTTGATAATGCCCGTCATCTC
CTTCCAAAGAATATGGTACTTCATATTATTGACTCGATGGGTTATAATAAATTCAATACT
ATGCATTGGCATTTAATAGATACTGTTGCATTCCCAGTGGAATCGAAAACCTATCCAAAG
TTAACTGAAGCATTACTTGGACCTGGTGCAATTATTACACATGATGATATTTTAGAXXXX
XXXXXXGTACTTCAACATGGTGTTAAATTTGATAAAGAAACTACTTTGGTTCAAACTTGG
ACAAATATTAATGATCTAAGAGATGTACTAGCCGCTGGTTATAAAACTATAACATCGTTC
TTTTTCTATTTAGATAGACAATCACCAACTGGAAATCATTATCATTATGAATGGCAAGAT
ACTTGGGAAGATTTCTATGCATCAGATCCAAGATTAAATATTACTTCAAATGCTGAAAAT
ATTTTAGGTGGTGAAGCTACTATGTTTGGTGAACAAGTTAGTACCGTCAATTGGGATGCC
AGAGTTTGGCCAAGAGCTATTGGTATCTCTGAAAGATTATGGTCTGCTACTGAAATTAAT
AATATCACTCCTTGCTCTCCCTCGTATTGGCCAATTCTCCNTGTGATATGTCCTCGTCGT
GGTATTTCCNCTGGTCCATTATTNCCCTGATTTTTGCTCATTACCTGATGATTTNNCTTT
TNCTTTAAACCA
sequence update 2001. 6. 1
Translated Amino Acid sequence 
llaywf*KXSSSNIELSLIIASDDETLELGIDESYFLLVNQDTYQIKANTIYGAMRGLET
FKQMVVYGVVENSYSLTCAEVVDYPTYQWRGLLVDNARHLLPKNMVLHIIDSMGYNKFNT
MHWHLIDTVAFPVESKTYPKLTEALLGPGAIITHDDIL---

---VLQHGVKFDKETTLVQTWTNINDLRDVLAAGYKTITSFFFYLDRQSPTGNHYHYEWQ
DTWEDFYASDPRLNITSNAENILGGEATMFGEQVSTVNWDARVWPRAIGISERLWSATEI
NNITPCSPSYWPILXVICPRRGISXGPLXP*fllit**fxfxfkp
Translated Amino Acid sequence (All Frames) 
Frame A:
llaywf*KXSSSNIELSLIIASDDETLELGIDESYFLLVNQDTYQIKANTIYGAMRGLET
FKQMVVYGVVENSYSLTCAEVVDYPTYQWRGLLVDNARHLLPKNMVLHIIDSMGYNKFNT
MHWHLIDTVAFPVESKTYPKLTEALLGPGAIITHDDIL---

---VLQHGVKFDKETTLVQTWTNINDLRDVLAAGYKTITSFFFYLDRQSPTGNHYHYEWQ
DTWEDFYASDPRLNITSNAENILGGEATMFGEQVSTVNWDARVWPRAIGISERLWSATEI
NNITPCSPSYWPILXVICPRRGISXGPLXP*fllit**fxfxfkp

Frame B:
cwptgfkxialqissyh*llqvmmkhlnwvlmkvtfy**iktlik*kpiqsmvq*ev*kh
snkw*fmvl*kivth*hvlkl*tiqpingedcwlimpvisfqriwyfilltrwviinsil
cigi**illhsqwnrkpiqs*lkhyldlvqllhmmif*---

---yfnmvlnlikkllwfklgqilmi*emy*plvikl*hrsfsi*idnhqleiiiimngk
ilgkismhqiqd*illqmlkif*vvkllclvnklvpsigmpefgqellvslkdyglllkl
iisllalprigqfsx*yvlvvvfplvhyxpdfcslpddxxfxln

Frame C:
vgllvlkx*lfkyrviinyck***nt*igy**kllfisesrhlsnksqynlwcnerfrni
qtngslwccrk*llidmc*scrlsnlsmerivg**cpsspskeygtsyy*ldgl**iqyy
alafnryccipsgienlskvn*sitwtwcnyyt**yfr---

---tstwc*i**rnyfgsnldky**skrctsrwl*nynivlflfr*titnwkslsl*mar
ylgrflcirskikyyfkc*kyfrw*syyvw*ts*yrqlgcqslaksywyl*kimvcy*n*
*yhsllslvlanspcdmssswyfxwsiixlifahylmixlxl*t
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFC223 (VFC223Q) /CSM/VF/VFC2-A/VFC223Q.Seq.d/                       1826   0.0
AFJ603 (AFJ603Q) /CSM/AF/AFJ6-A/AFJ603Q.Seq.d/                        884   0.0
AFN575 (AFN575Q) /CSM/AF/AFN5-D/AFN575Q.Seq.d/                        858   0.0
VHK827 (VHK827Q) /CSM/VH/VHK8-B/VHK827Q.Seq.d/                        846   0.0
VFK348 (VFK348Q) /CSM/VF/VFK3-B/VFK348Q.Seq.d/                        835   0.0
SLI877 (SLI877Q) /CSM/SL/SLI8-D/SLI877Q.Seq.d/                        791   0.0
VFA766 (VFA766Q) /CSM/VF/VFA7-C/VFA766Q.Seq.d/                        771   0.0
VFO641 (VFO641Q) /CSM/VF/VFO6-B/VFO641Q.Seq.d/                        541   e-153
VFM185 (VFM185Q) /CSM/VF/VFM1-D/VFM185Q.Seq.d/                        234   2e-60
VSB886 (VSB886Q) /CSM/VS/VSB8-D/VSB886Q.Seq.d/                        125   1e-27
own update 2004.12.25
Homology vs DNA 

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

J04065|J04065.1 D.discoideum beta-N-acetylhexosaminidase (nagA) mRNA, complete cds.    80  3e-59  8
BX571979|BX571979.2 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone DKEYP-51C11.    38  0.014  5
D49525|D49525.1 Caenorhabditis elegans gene for TPA-1A; TPA-1B, complete cds.    46  0.81  1
AC006741|AC006741.2 Caenorhabditis elegans clone Y38C1, WORKING DRAFT SEQUENCE, 43 unordered pieces.    46  0.81  1
AF078781|AF078781.1 Caenorhabditis elegans cosmid B0545, complete sequence.    46  0.81  1
AX347157|AX347157.1 Sequence 2228 from Patent WO0200928.          44  0.91  2
AL840626|AL840626.7 Mouse DNA sequence from clone RP23-151M8 on chromosome 2.    36  1.8  5
AC087321|AC087321.20 Homo sapiens 12p BAC RP11-606D9 (Roswell Park Cancer Institute Human BAC Library) complete sequence.    42  2.3  4
AC092454|AC092454.5 Homo sapiens chromosome 12 clone RP11-10A6, WORKING DRAFT SEQUENCE, 2 unordered pieces.    42  2.4  3
BU798521|BU798521.1 SJF2AEF09 SJF Schistosoma japonicum cDNA, mRNA sequence.    44  3.2  1
dna update 2003. 9.11
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54SC9) RecName: Full=Beta-hexosaminidase subunit A2;          ...   277   3e-73
(P13723) RecName: Full=Beta-hexosaminidase subunit A1;          ...   199   1e-49
(Q54K55) RecName: Full=Beta-hexosaminidase subunit B1;          ...   123   1e-26
AM493720_1(AM493720|pid:none) Arabidopsis thaliana mRNA for beta...   117   5e-25
AL132954_14(AL132954|pid:none) Arabidopsis thaliana DNA chromoso...   117   5e-25
AY629244_1(AY629244|pid:none) Oryctolagus cuniculus beta-hexosam...   113   9e-24
AC078977_6(AC078977|pid:none) Oryza sativa (japonica cultivar-gr...   112   3e-23
M19735_1(M19735|pid:none) Homo sapiens beta-hexosaminidase beta ...   111   3e-23
(P07686) RecName: Full=Beta-hexosaminidase subunit beta;        ...   111   3e-23
BT042908_1(BT042908|pid:none) Zea mays full-length cDNA clone ZM...   111   4e-23
protein update 2009. 6.17
PSORT 

 psg: 0.81  gvh: 0.40  alm: 0.39  top: 0.53  tms: 0.00  mit: 0.25  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 %: vesicles of secretory system
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: endoplasmic reticulum

>> prediction for VFC223 is cyt
5' end seq. ID VFC223F
5' end seq. 
>VFC223F.Seq
CTGTTGGCCTACTGGTTTTAAAAGNATAGCTCTTCAAATATCGAGTTATCATTAATTATT
GCAAGTGATGATGAAACACTTGAATTGGGTATTGATGAAAGTTACTTTTTATTAGTGAAT
CAAGACACTTATCAAATAAAAGCCAATACAATCTATGGTGCAATGAGAGGTTTAGAAACA
TTCAAACAAATGGTAGTTTATGGTGTTGTAGAAAATAGTTACTCATTGACATGTGCTGAA
GTTGTAGACTATCCAACCTATCAATGGAGAGGATTGTTGGTTGATAATGCCCGTCATCTC
CTTCCAAAGAATATGGTACTTCATATTATTGACTCGATGGGTTATAATAAATTCAATACT
ATGCATTGGCATTTAATAGATACTGTTGCATTCCCAGTGGAATCGAAAACCTATCCAAAG
TTAACTGAAGCATTACTTGGACCTGGTGCAATTATTACACATGATGATATTTTAGA----
------
Length of 5' end seq. 476
3' end seq. ID VFC223Z
3' end seq. 
>VFC223Z.Seq
----------GTACTTCAACATGGTGTTAAATTTGATAAAGAAACTACTTTGGTTCAAAC
TTGGACAAATATTAATGATCTAAGAGATGTACTAGCCGCTGGTTATAAAACTATAACATC
GTTCTTTTTCTATTTAGATAGACAATCACCAACTGGAAATCATTATCATTATGAATGGCA
AGATACTTGGGAAGATTTCTATGCATCAGATCCAAGATTAAATATTACTTCAAATGCTGA
AAATATTTTAGGTGGTGAAGCTACTATGTTTGGTGAACAAGTTAGTACCGTCAATTGGGA
TGCCAGAGTTTGGCCAAGAGCTATTGGTATCTCTGAAAGATTATGGTCTGCTACTGAAAT
TAATAATATCACTCCTTGCTCTCCCTCGTATTGGCCAATTCTCCNTGTGATATGTCCTCG
TCGTGGTATTTCCNCTGGTCCATTATTNCCCTGATTTTTGCTCATTACCTGATGATTTNN
CTTTTNCTTTAAACCA
Length of 3' end seq. 486
Connected seq. ID VFC223P
Connected seq. 
>VFC223P.Seq
CTGTTGGCCTACTGGTTTTAAAAGNATAGCTCTTCAAATATCGAGTTATCATTAATTATT
GCAAGTGATGATGAAACACTTGAATTGGGTATTGATGAAAGTTACTTTTTATTAGTGAAT
CAAGACACTTATCAAATAAAAGCCAATACAATCTATGGTGCAATGAGAGGTTTAGAAACA
TTCAAACAAATGGTAGTTTATGGTGTTGTAGAAAATAGTTACTCATTGACATGTGCTGAA
GTTGTAGACTATCCAACCTATCAATGGAGAGGATTGTTGGTTGATAATGCCCGTCATCTC
CTTCCAAAGAATATGGTACTTCATATTATTGACTCGATGGGTTATAATAAATTCAATACT
ATGCATTGGCATTTAATAGATACTGTTGCATTCCCAGTGGAATCGAAAACCTATCCAAAG
TTAACTGAAGCATTACTTGGACCTGGTGCAATTATTACACATGATGATATTTTAGA----
------GTACTTCAACATGGTGTTAAATTTGATAAAGAAACTACTTTGGTTCAAACTTGG
ACAAATATTAATGATCTAAGAGATGTACTAGCCGCTGGTTATAAAACTATAACATCGTTC
TTTTTCTATTTAGATAGACAATCACCAACTGGAAATCATTATCATTATGAATGGCAAGAT
ACTTGGGAAGATTTCTATGCATCAGATCCAAGATTAAATATTACTTCAAATGCTGAAAAT
ATTTTAGGTGGTGAAGCTACTATGTTTGGTGAACAAGTTAGTACCGTCAATTGGGATGCC
AGAGTTTGGCCAAGAGCTATTGGTATCTCTGAAAGATTATGGTCTGCTACTGAAATTAAT
AATATCACTCCTTGCTCTCCCTCGTATTGGCCAATTCTCCNTGTGATATGTCCTCGTCGT
GGTATTTCCNCTGGTCCATTATTNCCCTGATTTTTGCTCATTACCTGATGATTTNNCTTT
TNCTTTAAACCA
Length of connected seq. 962
Full length Seq ID -
Full length Seq. -
Length of full length seq. -