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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
VFC241
Library VF
(Link to library)
Clone ID VFC241
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16272-1
Original site URL
Representative seq. ID VFC241P
(Link to Original site)
Representative DNA sequence 
>VFC241 (VFC241Q) /CSM/VF/VFC2-B/VFC241Q.Seq.d/
CTTCTAAACAACAATAACAATATGAGTCATCGTAAATTTGAAGCTCCACGTCACGGTAAT
CTCGGTTTCAGACCAAGAAAGAGAGCCGCCAGGACATCAAGGTAAAGTCAAGTCATTCCC
AAAGGGATGACCGTACCCAAAAAGTCCACTTAACTGCATTCATGGGTTACAAAGCTGGTA
TGACTCACGTTGTCAGAGATTTAGAAAAACCAGGTTCAAAGATGCACAAAAAAGAAATCG
TTGAAGCCGTCACCATCATTGAATGTCCACCAATGTACATTGTTGGTTTAGTTGGTTATG
TTGAAACCGCTCAAGGTCTCAAAACCTACAAAACCGTCTGGGCTCAACATTTAAGTGATA
ACTTCCGTAXXXXXXXXXXACCAAAGGTAAAGGTTTCAATGGTGTCATTAAAAGATGGGG
TGTCCGTAAATTACCAAGAAAGACCCATAAAGGTTTAAGAAAGGTTGCCTGTATTGGTGC
ATGGCATCCATCCCGTGTTAGTACCACCGTCCCAAGAGCTGGTCAACTCGGTTACCATCA
TCGTGTCGAAAGAAACAAGAAGATTTACAGAATCGGTCAAGCTCAACCAGAAGACGGTAA
ACAAATCTCAACCGGTAAGACTGAATTCGATTTAACTGAAAAGACTATCAATCCAATGGG
TGGTTTCGCTCACTACGGTATGGTTAAACATGAATTCTTAATGCTTAAAGGTTGTGTTGC
TGGTCCAAGAAAGAGAGCCTTAACCTTAAGAAAGAGTATCACCACTCAAACTGGTCGTGC
TGCCCTCGAGAAAATCACTCTCAAATTCATCGATACCTCCAGCAAGTTTGGTCACGGTCT
TCATCAAACCGCTGAAGATAAGACTAAATATTTCGGCGTCAAGAAATCAAGNT
sequence update 2001. 6. 1
Translated Amino Acid sequence 
skqq*qyess*i*sstsr*SRFQTKKESRQDIKVKSSHSQRDDRTQKVHLTAFMGYKAGM
THVVRDLEKPGSKMHKKEIVEAVTIIECPPMYIVGLVGYVETAQGLKTYKTVWAQHLSDN
FR---

---TKGKGFNGVIKRWGVRKLPRKTHKGLRKVACIGAWHPSRVSTTVPRAGQLGYHHRVE
RNKKIYRIGQAQPEDGKQISTGKTEFDLTEKTINPMGGFAHYGMVKHEFLMLKGCVAGPR
KRALTLRKSITTQTGRAALEKITLKFIDTSSKFGHGLHQTAEDKTKYFGVKKSX
Translated Amino Acid sequence (All Frames) 
Frame A:
llnnnnnmshrkfeaprhgnlgfrprkraartsr*sqvipkgmtvpkkst*lhswvtklv
*ltlsei*knqvqrctkkkslkpspslnvhqctllv*lvmlkplkvskptkpsglni*vi
tsv---

---TKGKGFNGVIKRWGVRKLPRKTHKGLRKVACIGAWHPSRVSTTVPRAGQLGYHHRVE
RNKKIYRIGQAQPEDGKQISTGKTEFDLTEKTINPMGGFAHYGMVKHEFLMLKGCVAGPR
KRALTLRKSITTQTGRAALEKITLKFIDTSSKFGHGLHQTAEDKTKYFGVKKSX

Frame B:
f*ttiti*vivnlklhvtvisvsdqereppghqgkvksfpkg*pypksplncihglqswy
dsrcqrfrktrfkdaqkrnr*srhhh*mstnvhcwfswlc*nrsrsqnlqnrlgstfk**
lp---

---pkvkvsmvslkdgvsvnyqerpikv*erlpvlvhgihpvlvppsqelvnsvtiivsk
etrrftesvklnqktvnksqpvrlnsi*lkrlsiqwvvslttvwlnmns*clkvvllvqe
rep*p*ervsplklvvlpsrkslsnssippaslvtvfikplkirlnisasrnqx

Frame C:
skqq*qyess*i*sstsr*SRFQTKKESRQDIKVKSSHSQRDDRTQKVHLTAFMGYKAGM
THVVRDLEKPGSKMHKKEIVEAVTIIECPPMYIVGLVGYVETAQGLKTYKTVWAQHLSDN
FR---

---qr*rfqwch*kmgcp*itkkdp*rfkkgclywcmasipc*yhrpkswstrlpsscrk
kqedlqnrssstrrr*tnlnr*d*irfn*kdyqsngwfrslryg*t*ilna*rlccwskk
eslnlkkeyhhsnwsccprenhsqihrylqqvwsrsssnr*r*d*ifrrqeik
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHA485 (VHA485Q) /CSM/VH/VHA4-D/VHA485Q.Seq.d/                       1015   0.0
VFO878 (VFO878Q) /CSM/VF/VFO8-D/VFO878Q.Seq.d/                       1015   0.0
VFO585 (VFO585Q) /CSM/VF/VFO5-D/VFO585Q.Seq.d/                       1015   0.0
VFN470 (VFN470Q) /CSM/VF/VFN4-C/VFN470Q.Seq.d/                       1015   0.0
VFN445 (VFN445Q) /CSM/VF/VFN4-B/VFN445Q.Seq.d/                       1015   0.0
VFN362 (VFN362Q) /CSM/VF/VFN3-C/VFN362Q.Seq.d/                       1015   0.0
VFN353 (VFN353Q) /CSM/VF/VFN3-C/VFN353Q.Seq.d/                       1015   0.0
VFN173 (VFN173Q) /CSM/VF/VFN1-D/VFN173Q.Seq.d/                       1015   0.0
VFM895 (VFM895Q) /CSM/VF/VFM8-D/VFM895Q.Seq.d/                       1015   0.0
VFM836 (VFM836Q) /CSM/VF/VFM8-B/VFM836Q.Seq.d/                       1015   0.0
own update 2004.12.25
Homology vs DNA 

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

L08391|L08391.1 Dictyostelium discoideum ribosomal protein (L3) gene, complete cds.   660  0.0  6
AX489150|AX489150.1 Sequence 6450 from Patent WO02053728.         78  7e-38  8
Z74971|Z74971.1 S.cerevisiae chromosome XV reading frame ORF YOR063w.    70  8e-28  6
J01351|J01351.1 S.cerevisiae ribosomal protein L3 (tcm1) gene.    62  1e-26  6
Z70678|Z70678.1 S.cerevisiae chromosome XV DNA, 54.7 kb region.    70  5e-22  7
AX765804|AX765804.1 Sequence 13 from Patent WO03008440.           74  9e-20  4
AY052743|AY052743.1 Arabidopsis thaliana At1g43170/F1I21_18 mRNA, complete cds.    74  9e-20  4
AF361101|AF361101.1 Arabidopsis thaliana putative L3 cytoplasmic ribosomal protein (F1I21.L3) mRNA, complete cds.    74  1e-19  4
AY057487|AY057487.1 Arabidopsis thaliana At1g43170/F1I21_18 mRNA, complete cds.    74  1e-19  4
AF361809|AF361809.1 Arabidopsis thaliana At1g43170/F1I21_18 gene, complete cds.    74  1e-19  4
dna update 2003. 9.11
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P34113) RecName: Full=60S ribosomal protein L3;  &JC4254(JC4254...   352   1e-95
BT070643_1(BT070643|pid:none) Picea sitchensis clone WS02742_A15...   238   3e-61
AY395739_1(AY395739|pid:none) Nicotiana tabacum ribosomal protei...   236   8e-61
BT034517_1(BT034517|pid:none) Zea mays full-length cDNA clone ZM...   236   1e-60
BT036034_1(BT036034|pid:none) Zea mays full-length cDNA clone ZM...   236   1e-60
EU999182_1(EU999182|pid:none) Artemia franciscana ribosomal prot...   236   1e-60
DQ241849_1(DQ241849|pid:none) Solanum tuberosum clone 187E04 rib...   234   2e-60
AM452874_1(AM452874|pid:none) Vitis vinifera contig VV78X187512....   234   3e-60
AM471157_1(AM471157|pid:none) Vitis vinifera contig VV78X211407....   234   4e-60
EF070522_1(EF070522|pid:none) Maconellicoccus hirsutus clone WHM...   233   5e-60
protein update 2009. 6.17
PSORT 

 psg: 0.51  gvh: 0.21  alm: 0.36  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.02
 nuc: 0.09  erl: 0.00  erm: 0.60  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 

	 68.0 %: nuclear
	 20.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: peroxisomal

>> prediction for VFC241 is nuc
5' end seq. ID VFC241F
5' end seq. 
>VFC241F.Seq
CTTCTAAACAACAATAACAATATGAGTCATCGTAAATTTGAAGCTCCACGTCACGGTAAT
CTCGGTTTCAGACCAAGAAAGAGAGCCGCCAGGACATCAAGGTAAAGTCAAGTCATTCCC
AAAGGGATGACCGTACCCAAAAAGTCCACTTAACTGCATTCATGGGTTACAAAGCTGGTA
TGACTCACGTTGTCAGAGATTTAGAAAAACCAGGTTCAAAGATGCACAAAAAAGAAATCG
TTGAAGCCGTCACCATCATTGAATGTCCACCAATGTACATTGTTGGTTTAGTTGGTTATG
TTGAAACCGCTCAAGGTCTCAAAACCTACAAAACCGTCTGGGCTCAACATTTAAGTGATA
ACTTCCGTA----------
Length of 5' end seq. 369
3' end seq. ID VFC241Z
3' end seq. 
>VFC241Z.Seq
----------ACCAAAGGTAAAGGTTTCAATGGTGTCATTAAAAGATGGGGTGTCCGTAA
ATTACCAAGAAAGACCCATAAAGGTTTAAGAAAGGTTGCCTGTATTGGTGCATGGCATCC
ATCCCGTGTTAGTACCACCGTCCCAAGAGCTGGTCAACTCGGTTACCATCATCGTGTCGA
AAGAAACAAGAAGATTTACAGAATCGGTCAAGCTCAACCAGAAGACGGTAAACAAATCTC
AACCGGTAAGACTGAATTCGATTTAACTGAAAAGACTATCAATCCAATGGGTGGTTTCGC
TCACTACGGTATGGTTAAACATGAATTCTTAATGCTTAAAGGTTGTGTTGCTGGTCCAAG
AAAGAGAGCCTTAACCTTAAGAAAGAGTATCACCACTCAAACTGGTCGTGCTGCCCTCGA
GAAAATCACTCTCAAATTCATCGATACCTCCAGCAAGTTTGGTCACGGTCTTCATCAAAC
CGCTGAAGATAAGACTAAATATTTCGGCGTCAAGAAATCAAGNT
Length of 3' end seq. 514
Connected seq. ID VFC241P
Connected seq. 
>VFC241P.Seq
CTTCTAAACAACAATAACAATATGAGTCATCGTAAATTTGAAGCTCCACGTCACGGTAAT
CTCGGTTTCAGACCAAGAAAGAGAGCCGCCAGGACATCAAGGTAAAGTCAAGTCATTCCC
AAAGGGATGACCGTACCCAAAAAGTCCACTTAACTGCATTCATGGGTTACAAAGCTGGTA
TGACTCACGTTGTCAGAGATTTAGAAAAACCAGGTTCAAAGATGCACAAAAAAGAAATCG
TTGAAGCCGTCACCATCATTGAATGTCCACCAATGTACATTGTTGGTTTAGTTGGTTATG
TTGAAACCGCTCAAGGTCTCAAAACCTACAAAACCGTCTGGGCTCAACATTTAAGTGATA
ACTTCCGTA----------ACCAAAGGTAAAGGTTTCAATGGTGTCATTAAAAGATGGGG
TGTCCGTAAATTACCAAGAAAGACCCATAAAGGTTTAAGAAAGGTTGCCTGTATTGGTGC
ATGGCATCCATCCCGTGTTAGTACCACCGTCCCAAGAGCTGGTCAACTCGGTTACCATCA
TCGTGTCGAAAGAAACAAGAAGATTTACAGAATCGGTCAAGCTCAACCAGAAGACGGTAA
ACAAATCTCAACCGGTAAGACTGAATTCGATTTAACTGAAAAGACTATCAATCCAATGGG
TGGTTTCGCTCACTACGGTATGGTTAAACATGAATTCTTAATGCTTAAAGGTTGTGTTGC
TGGTCCAAGAAAGAGAGCCTTAACCTTAAGAAAGAGTATCACCACTCAAACTGGTCGTGC
TGCCCTCGAGAAAATCACTCTCAAATTCATCGATACCTCCAGCAAGTTTGGTCACGGTCT
TCATCAAACCGCTGAAGATAAGACTAAATATTTCGGCGTCAAGAAATCAAGNT
Length of connected seq. 883
Full length Seq ID -
Full length Seq. -
Length of full length seq. -