NBDC - アーカイブトップ - ヘルプ
データベースの説明 | データ項目の説明 | 利用許諾 | ヘルプ
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
Description of this DB | Description of data items | Download | License
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
VFB559
Library VF
(Link to library)
Clone ID VFB559
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16272-1
Original site URL
Representative seq. ID VFB559P
(Link to Original site)
Representative DNA sequence 
>VFB559 (VFB559Q) /CSM/VF/VFB5-C/VFB559Q.Seq.d/
CACTGTTGGCCTACTGGGTTAGTCACTTCTAAACAACAATAACAATATGAGTCATCGTAA
ATTTGAAGCTCCACGTCACGGTAATCTCGGTTTCAGACCAAGAAAGAGAGCCGCCAGACA
TCAAGGTAAAGTCAAGTCATTCCCAAAGGATGACCGTACCCAAAAAGTCCACTTAACTGC
ATTCATGGGTTACAAAGCTGGTGTGACTCACGTTGTCAGANATTTAGAAAAACCAGGTTC
AAAGATGCACAAAAAAGAAATCGTTGAAGCCGTCACCATCATTGAATGTCCACCAATGTA
CATTGTTXXXXXXXXXXAAAAGACCGTCAACGTCACTGGTGTCTTTGCCGAAAATGAATT
AATCGATGTTATCGGTGTAACCAAAGGTAAAGGTTTCAATGGTGTCATTAAAAGATGGGG
TGTCCGTAAATTACCAAGAAAGACCCATAAAGGTTTAAGAAAGGTTGCCTGTATTGGTGC
ATGGCATCCATCCCGTGTTAGTACCACCGTCCCAAGAGCTGGTCAACTCGGTTACCATCA
TCGTGTCGAAAGAAACAAGAAGATTTACAGAATCGGTCAAGCTCAACCAGAAGACGGTAA
ACAAATCTCAACCGGTAAGACTGAATTCGATTTAACTGAAAAGACTATCAATCCAATGGG
TGGTTTCGCTCACTACGGTATGGTTAAACATGAATTCTTAATGCTTAAAGGTTGTGTTGC
TGGTCCAAGAAAGAGAGCCTTAACCTTAAGAAAGAGTATCACCACTCAAACTGGTCGTGC
TGCCCTCGAGAAAATCACTCTCAAATTCATCGATACCTCCAGCAAGTTTGGTCACGGTCT
TCATCAAACCGCTGAAGATAAGACTAAATATTTCGGCGTCAAGAAATCAAGNATCAACTA
AGGCTTAAATTCAATAAATTAGATTTCANAGAGTTACAAAC
sequence update 2001. 6. 1
Translated Amino Acid sequence 
tvgllg*SLLNNNNNMSHRKFEAPRHGNLGFRPRKRAARHQGKVKSFPKDDRTQKVHLTA
FMGYKAGVTHVVRXLEKPGSKMHKKEIVEAVTIIECPPMYIV---

---KTVNVTGVFAENELIDVIGVTKGKGFNGVIKRWGVRKLPRKTHKGLRKVACIGAWHP
SRVSTTVPRAGQLGYHHRVERNKKIYRIGQAQPEDGKQISTGKTEFDLTEKTINPMGGFA
HYGMVKHEFLMLKGCVAGPRKRALTLRKSITTQTGRAALEKITLKFIDTSSKFGHGLHQT
AEDKTKYFGVKKSXIN*glnsin*isxsyk
Translated Amino Acid sequence (All Frames) 
Frame A:
hcwptglvtskqq*qyess*i*sstsr*srfqtkkesrqtsr*sqvipkg*pypksplnc
ihglqswcdsrcqxfrktrfkdaqkrnr*srhhh*mstnvhc---

---krpstslvslpkmn*smlsv*pkvkvsmvslkdgvsvnyqerpikv*erlpvlvhgi
hpvlvppsqelvnsvtiivsketrrftesvklnqktvnksqpvrlnsi*lkrlsiqwvvs
lttvwlnmns*clkvvllvqerep*p*ervsplklvvlpsrkslsnssippaslvtvfik
plkirlnisasrnqxstka*iq*irfxrvtn

Frame B:
tvgllg*SLLNNNNNMSHRKFEAPRHGNLGFRPRKRAARHQGKVKSFPKDDRTQKVHLTA
FMGYKAGVTHVVRXLEKPGSKMHKKEIVEAVTIIECPPMYIV---

---kdrqrhwclcrk*inrcyrcnqr*rfqwch*kmgcp*itkkdp*rfkkgclywcmas
ipc*yhrpkswstrlpsscrkkqedlqnrssstrrr*tnlnr*d*irfn*kdyqsngwfr
slryg*t*ilna*rlccwskkeslnlkkeyhhsnwsccprenhsqihrylqqvwsrsssn
r*r*d*ifrrqeikxqlrlkfnkldfxelq

Frame C:
llaywvshf*ttiti*vivnlklhvtvisvsdqereppdikvksshsqrmtvpkkst*lh
swvtklv*ltlsxi*knqvqrctkkkslkpspslnvhqctl---

---KTVNVTGVFAENELIDVIGVTKGKGFNGVIKRWGVRKLPRKTHKGLRKVACIGAWHP
SRVSTTVPRAGQLGYHHRVERNKKIYRIGQAQPEDGKQISTGKTEFDLTEKTINPMGGFA
HYGMVKHEFLMLKGCVAGPRKRALTLRKSITTQTGRAALEKITLKFIDTSSKFGHGLHQT
AEDKTKYFGVKKSXIN*glnsin*isxsyk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFB559 (VFB559Q) /CSM/VF/VFB5-C/VFB559Q.Seq.d/                       1788   0.0
VFL811 (VFL811Q) /CSM/VF/VFL8-A/VFL811Q.Seq.d/                       1215   0.0
VFL405 (VFL405Q) /CSM/VF/VFL4-A/VFL405Q.Seq.d/                       1215   0.0
VFG611 (VFG611Q) /CSM/VF/VFG6-A/VFG611Q.Seq.d/                       1215   0.0
VFG417 (VFG417Q) /CSM/VF/VFG4-A/VFG417Q.Seq.d/                       1215   0.0
AFF393 (AFF393Q) /CSM/AF/AFF3-D/AFF393Q.Seq.d/                       1215   0.0
SFG771 (SFG771Q) /CSM/SF/SFG7-C/SFG771Q.Seq.d/                       1207   0.0
VFN362 (VFN362Q) /CSM/VF/VFN3-C/VFN362Q.Seq.d/                       1205   0.0
VFM438 (VFM438Q) /CSM/VF/VFM4-B/VFM438Q.Seq.d/                       1205   0.0
VFL835 (VFL835Q) /CSM/VF/VFL8-B/VFL835Q.Seq.d/                       1205   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.   783  0.0  5
AX489150|AX489150.1 Sequence 6450 from Patent WO02053728.         78  1e-30  7
CB890778|CB890778.1 taa53h06.x1 Hydra EST -III Hydra magnipapillata cDNA 3' similar to SW:RL3_DROME O16797 60S RIBOSOMAL PROTEIN L3. [1] ;, mRNA sequence.    60  1e-18  3
CB889634|CB889634.1 taa39c02.x3 Hydra EST -III Hydra magnipapillata cDNA 3' similar to SW:RL3_MOUSE P27659 60S RIBOSOMAL PROTEIN L3 ;, mRNA sequence.    60  2e-18  3
CD566466|CD566466.1 tac05h02.x1 Hydra EST -III Hydra magnipapillata cDNA 3' similar to SW:RL3_DROME O16797 60S RIBOSOMAL PROTEIN L3. [1] ;, mRNA sequence.    60  2e-18  3
CB888312|CB888312.1 taa90e07.x1 Hydra EST -III Hydra magnipapillata cDNA 3' similar to SW:RL3_DROME O16797 60S RIBOSOMAL PROTEIN L3. [1] ;, mRNA sequence.    60  3e-18  3
CB888732|CB888732.1 taa80g11.x1 Hydra EST -III Hydra magnipapillata cDNA 3' similar to SW:RL3_DROME O16797 60S RIBOSOMAL PROTEIN L3. [1] ;, mRNA sequence.    60  3e-18  3
CB890866|CB890866.1 taa55b04.x1 Hydra EST -III Hydra magnipapillata cDNA 3' similar to SW:RL3_DROME O16797 60S RIBOSOMAL PROTEIN L3. [1] ;, mRNA sequence.    60  3e-18  3
CB935863|CB935863.1 tab97d07.x1 Hydra EST -III Hydra magnipapillata cDNA 3' similar to SW:RL3_DROME O16797 60S RIBOSOMAL PROTEIN L3. [1] ;, mRNA sequence.    60  3e-18  3
CB889578|CB889578.1 taa38d01.x3 Hydra EST -III Hydra magnipapillata cDNA 3' similar to SW:RL3_DROME O16797 60S RIBOSOMAL PROTEIN L3. [1] ;, mRNA sequence.    60  3e-18  3
dna update 2003. 9. 3
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P34113) RecName: Full=60S ribosomal protein L3;  &JC4254(JC4254...   392   e-107
AK092695_1(AK092695|pid:none) Homo sapiens cDNA FLJ35376 fis, cl...   298   2e-79
Z49936_2(Z49936|pid:none) Caenorhabditis elegans Cosmid F13B10, ...   278   2e-73
Z49936_3(Z49936|pid:none) Caenorhabditis elegans Cosmid F13B10, ...   261   3e-68
BT070643_1(BT070643|pid:none) Picea sitchensis clone WS02742_A15...   259   9e-68
BC158279_1(BC158279|pid:none) Xenopus tropicalis hypothetical pr...   257   5e-67
BT034517_1(BT034517|pid:none) Zea mays full-length cDNA clone ZM...   256   6e-67
BT036034_1(BT036034|pid:none) Zea mays full-length cDNA clone ZM...   256   6e-67
AY395739_1(AY395739|pid:none) Nicotiana tabacum ribosomal protei...   256   6e-67
DQ241849_1(DQ241849|pid:none) Solanum tuberosum clone 187E04 rib...   255   1e-66
protein update 2009. 6.17
PSORT 

 psg: 0.60  gvh: 0.22  alm: 0.41  top: 0.53  tms: 0.00  mit: 0.37  mip: 0.06
 nuc: 0.27  erl: 0.00  erm: 0.20  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: 0.50  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 80.0 %: cytoplasmic
	 16.0 %: mitochondrial
	  4.0 %: nuclear

>> prediction for VFB559 is cyt
5' end seq. ID VFB559F
5' end seq. 
>VFB559F.Seq
CACTGTTGGCCTACTGGGTTAGTCACTTCTAAACAACAATAACAATATGAGTCATCGTAA
ATTTGAAGCTCCACGTCACGGTAATCTCGGTTTCAGACCAAGAAAGAGAGCCGCCAGACA
TCAAGGTAAAGTCAAGTCATTCCCAAAGGATGACCGTACCCAAAAAGTCCACTTAACTGC
ATTCATGGGTTACAAAGCTGGTGTGACTCACGTTGTCAGANATTTAGAAAAACCAGGTTC
AAAGATGCACAAAAAAGAAATCGTTGAAGCCGTCACCATCATTGAATGTCCACCAATGTA
CATTGTT----------
Length of 5' end seq. 307
3' end seq. ID VFB559Z
3' end seq. 
>VFB559Z.Seq
----------AAAAGACCGTCAACGTCACTGGTGTCTTTGCCGAAAATGAATTAATCGAT
GTTATCGGTGTAACCAAAGGTAAAGGTTTCAATGGTGTCATTAAAAGATGGGGTGTCCGT
AAATTACCAAGAAAGACCCATAAAGGTTTAAGAAAGGTTGCCTGTATTGGTGCATGGCAT
CCATCCCGTGTTAGTACCACCGTCCCAAGAGCTGGTCAACTCGGTTACCATCATCGTGTC
GAAAGAAACAAGAAGATTTACAGAATCGGTCAAGCTCAACCAGAAGACGGTAAACAAATC
TCAACCGGTAAGACTGAATTCGATTTAACTGAAAAGACTATCAATCCAATGGGTGGTTTC
GCTCACTACGGTATGGTTAAACATGAATTCTTAATGCTTAAAGGTTGTGTTGCTGGTCCA
AGAAAGAGAGCCTTAACCTTAAGAAAGAGTATCACCACTCAAACTGGTCGTGCTGCCCTC
GAGAAAATCACTCTCAAATTCATCGATACCTCCAGCAAGTTTGGTCACGGTCTTCATCAA
ACCGCTGAAGATAAGACTAAATATTTCGGCGTCAAGAAATCAAGNATCAACTAAGGCTTA
AATTCAATAAATTAGATTTCANAGAGTTACAAAC
Length of 3' end seq. 624
Connected seq. ID VFB559P
Connected seq. 
>VFB559P.Seq
CACTGTTGGCCTACTGGGTTAGTCACTTCTAAACAACAATAACAATATGAGTCATCGTAA
ATTTGAAGCTCCACGTCACGGTAATCTCGGTTTCAGACCAAGAAAGAGAGCCGCCAGACA
TCAAGGTAAAGTCAAGTCATTCCCAAAGGATGACCGTACCCAAAAAGTCCACTTAACTGC
ATTCATGGGTTACAAAGCTGGTGTGACTCACGTTGTCAGANATTTAGAAAAACCAGGTTC
AAAGATGCACAAAAAAGAAATCGTTGAAGCCGTCACCATCATTGAATGTCCACCAATGTA
CATTGTT----------AAAAGACCGTCAACGTCACTGGTGTCTTTGCCGAAAATGAATT
AATCGATGTTATCGGTGTAACCAAAGGTAAAGGTTTCAATGGTGTCATTAAAAGATGGGG
TGTCCGTAAATTACCAAGAAAGACCCATAAAGGTTTAAGAAAGGTTGCCTGTATTGGTGC
ATGGCATCCATCCCGTGTTAGTACCACCGTCCCAAGAGCTGGTCAACTCGGTTACCATCA
TCGTGTCGAAAGAAACAAGAAGATTTACAGAATCGGTCAAGCTCAACCAGAAGACGGTAA
ACAAATCTCAACCGGTAAGACTGAATTCGATTTAACTGAAAAGACTATCAATCCAATGGG
TGGTTTCGCTCACTACGGTATGGTTAAACATGAATTCTTAATGCTTAAAGGTTGTGTTGC
TGGTCCAAGAAAGAGAGCCTTAACCTTAAGAAAGAGTATCACCACTCAAACTGGTCGTGC
TGCCCTCGAGAAAATCACTCTCAAATTCATCGATACCTCCAGCAAGTTTGGTCACGGTCT
TCATCAAACCGCTGAAGATAAGACTAAATATTTCGGCGTCAAGAAATCAAGNATCAACTA
AGGCTTAAATTCAATAAATTAGATTTCANAGAGTTACAAAC
Length of connected seq. 931
Full length Seq ID -
Full length Seq. -
Length of full length seq. -