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
VSF114
Library VS
(Link to library)
Clone ID VSF114
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16222-1
Original site URL
Representative seq. ID VSF114P
(Link to Original site)
Representative DNA sequence 
>VSF114 (VSF114Q) /CSM/VS/VSF1-A/VSF114Q.Seq.d/
GCTTCAAACTGTGACGAACCAAACTTTGTTCGTTTAGTTAAAGCCCTCGCCACCGAACAC
AACATCCCATTAATTGAAGTTCCAGATAACAAAGCTTTAGGTGAATGGGCTGGTCTCTGC
AAATTAGACAAAGATCTTGCTGCTCGTAAAGTTGTTGCTTGTTCAACCTTAGTCATCAAG
ACTTTCGGTAAAGAATCTGACGATTACAAATTCTTAATGGAATACATTTCAAAACAATAA
ATTTGTTAATGAAATAATATAAAATAAACTGGGAGAAACAATAATATGATTCACTCTTTT
TAAAAAAAAAAXXXXXXXXXXGCTTCAAACTGTGACGAACCAAACTTTGTTCGTTTAGTT
AAAGCCCTCGCCACCGAACACAACATCCCATTAATTGAAGTTCCAGATAACAAAGCTTTA
GGTGAATGGGCTGGTCTCTGCAAATTAGACAAAGATCTTGCTGCTCGTAAAGTTGTTGCT
TGTTCAACCTTAGTCATCAAGACTTTCGGTAAAGAATCTGACGATTACAAATTCTTAATG
GAATACATTTCAAAACAATAAATTTGTTAATGAAATAATATAAAATAAACGGGAGAAACA
ATAATA
sequence update 2001. 3.22
Translated Amino Acid sequence 
fkl*rtklcsfs*sprhrtqhpin*ssr*qsfr*mgwslqirqrsccs*scclfnlshqd
fr*ri*rlqilngihfktinllmk*ykinwekq*YDSLFLKKK---

---ASNCDEPNFVRLVKALATEHNIPLIEVPDNKALGEWAGLCKLDKDLAARKVVACSTL
VIKTFGKESDDYKFLMEYISKQ*ic**nnik*tgetii
Translated Amino Acid sequence (All Frames) 
Frame A:
asncdepnfvrlvkalatehniplievpdnkalgewaglckldkdlaarkvvacstlvik
tfgkesddykflmeyiskq*ic**nnik*tgrnnnmihsf*kk---

---ASNCDEPNFVRLVKALATEHNIPLIEVPDNKALGEWAGLCKLDKDLAARKVVACSTL
VIKTFGKESDDYKFLMEYISKQ*ic**nnik*tgetii

Frame B:
lqtvtnqtlfv*lkpsppnttsh*lkfqitkl*vnglvsan*tkilllvklllvqp*ssr
lsvknltitns*wntfqnnkfvneii*nklgetii*ftlfkkk---

---lqtvtnqtlfv*lkpsppnttsh*lkfqitkl*vnglvsan*tkilllvklllvqp*
ssrlsvknltitns*wntfqnnkfvneii*nkrekq*

Frame C:
fkl*rtklcsfs*sprhrtqhpin*ssr*qsfr*mgwslqirqrsccs*scclfnlshqd
fr*ri*rlqilngihfktinllmk*ykinwekq*YDSLFLKKK---

---fkl*rtklcsfs*sprhrtqhpin*ssr*qsfr*mgwslqirqrsccs*scclfnls
hqdfr*ri*rlqilngihfktinllmk*ykingrnnn
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSF114 (VSF114Q) /CSM/VS/VSF1-A/VSF114Q.Seq.d/                        597   e-170
VSC866 (VSC866Q) /CSM/VS/VSC8-C/VSC866Q.Seq.d/                        597   e-170
SSM277 (SSM277Q) /CSM/SS/SSM2-D/SSM277Q.Seq.d/                        597   e-170
SSK620 (SSK620Q) /CSM/SS/SSK6-A/SSK620Q.Seq.d/                        597   e-170
SLH616 (SLH616Q) /CSM/SL/SLH6-A/SLH616Q.Seq.d/                        597   e-170
FC-AJ21 (FC-AJ21Q) /CSM/FC/FC-AJ/FC-AJ21Q.Seq.d/                      597   e-170
FC-165 (FC-165Q) /CSM/CG/CG-FC/FC-165Q.Seq.d/                         597   e-170
VHE204 (VHE204Q) /CSM/VH/VHE2-A/VHE204Q.Seq.d/                        589   e-167
FC-AI16 (FC-AI16Q) /CSM/FC/FC-AI/FC-AI16Q.Seq.d/                      589   e-167
FC-AU20 (FC-AU20Q) /CSM/FC/FC-AU/FC-AU20Q.Seq.d/                      581   e-165
own update 2003. 1. 9
Homology vs DNA 

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

CA755296|0    70  2e-15  3
AX392736|AX392736.1 Sequence 26 from Patent WO0212526.            36  0.041  5
AZ604025|AZ604025.1 1M0423J12R Mouse 10kb plasmid UUGC1M library Mus musculus genomic clone UUGC1M0423J12 R, DNA sequence.    36  0.082  2
CD827295|CD827295.1 BN25.066P14F020123 BN25 Brassica napus cDNA clone BN25066P14, mRNA sequence.    48  0.13  1
AC116273|AC116273.6 Rattus norvegicus clone CH230-354C23, *** SEQUENCING IN PROGRESS ***, 3 unordered pieces.    42  0.14  4
BG514328|BG514328.1 dae05a04.x1 NICHD XGC Lu1 Xenopus laevis cDNA clone IMAGE:4633230 3' similar to SW:RS12_XENLA P47840 40S RIBOSOMAL PROTEIN S12. ;, mRNA sequence.    40  0.20  2
BG370944|BG370944.1 dac46f10.x1 RIKEN Xenopus egg Xenopus laevis cDNA clone IMAGE:4433059 3' similar to SW:RS12_XENLA P47840 40S RIBOSOMAL PROTEIN S12. ;, mRNA sequence.    40  0.22  2
BG348215|BG348215.1 dg39f07.y1 Xenopus laevis gastrula non normalized Xenopus laevis cDNA clone XENOPUS_SOURCE_ID:xlnnga011k13 5' similar to SW:RS12_XENLA P47840 40S RIBOSOMAL PROTEIN S12. ;, mRNA sequence.    40  0.28  2
BJ098731|BJ098731.1 Xenopus laevis cDNA clone:XL147m14, 3' end, single read.    40  0.30  2
BG513575|BG513575.1 dac15g12.x2 NICHD XGC He1 Xenopus laevis cDNA clone IMAGE:4407358 3' similar to SW:RS12_XENLA P47840 40S RIBOSOMAL PROTEIN S12. ;, mRNA sequence.    40  0.31  2
dna update 2003. 8.23
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54PX9) RecName: Full=40S ribosomal protein S12;                     162   5e-39
AY203897_1(AY203897|pid:none) Perinereis aibuhitensis 40S riboso...    98   2e-19
(Q9SMI3) RecName: Full=40S ribosomal protein S12;  &AJ011717_1(A...    97   3e-19
EU953414_1(EU953414|pid:none) Zea mays clone 1409302 40S ribosom...    97   4e-19
EU302575_1(EU302575|pid:none) Lineus viridis ribosomal protein r...    97   5e-19
AC153003_6(AC153003|pid:none) Medicago truncatula clone mth2-96o...    96   6e-19
BT036166_1(BT036166|pid:none) Zea mays full-length cDNA clone ZM...    96   6e-19
EU952353_1(EU952353|pid:none) Zea mays clone 1278254 40S ribosom...    96   6e-19
BT065287_1(BT065287|pid:none) Zea mays full-length cDNA clone ZM...    96   6e-19
EU558298_1(EU558298|pid:none) Novocrania anomala putative 40S ri...    96   6e-19
protein update 2009. 7.31
PSORT 

 psg: 0.52  gvh: 0.31  alm: 0.41  top: 0.53  tms: 0.00  mit: 0.24  mip: 0.00
 nuc: 0.00  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: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 56.0 %: cytoplasmic
	 24.0 %: nuclear
	 12.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for VSF114 is cyt
5' end seq. ID VSF114F
5' end seq. 
>VSF114F.Seq
GCTTCAAACTGTGACGAACCAAACTTTGTTCGTTTAGTTAAAGCCCTCGCCACCGAACAC
AACATCCCATTAATTGAAGTTCCAGATAACAAAGCTTTAGGTGAATGGGCTGGTCTCTGC
AAATTAGACAAAGATCTTGCTGCTCGTAAAGTTGTTGCTTGTTCAACCTTAGTCATCAAG
ACTTTCGGTAAAGAATCTGACGATTACAAATTCTTAATGGAATACATTTCAAAACAATAA
ATTTGTTAATGAAATAATATAAAATAAACTGGGAGAAACAATAATATGATTCACTCTTTT
TAAAAAAAAAA----------
Length of 5' end seq. 311
3' end seq. ID VSF114Z
3' end seq. 
>VSF114Z.Seq
----------GCTTCAAACTGTGACGAACCAAACTTTGTTCGTTTAGTTAAAGCCCTCGC
CACCGAACACAACATCCCATTAATTGAAGTTCCAGATAACAAAGCTTTAGGTGAATGGGC
TGGTCTCTGCAAATTAGACAAAGATCTTGCTGCTCGTAAAGTTGTTGCTTGTTCAACCTT
AGTCATCAAGACTTTCGGTAAAGAATCTGACGATTACAAATTCTTAATGGAATACATTTC
AAAACAATAAATTTGTTAATGAAATAATATAAAATAAACGGGAGAAACAATAATA
Length of 3' end seq. 285
Connected seq. ID VSF114P
Connected seq. 
>VSF114P.Seq
GCTTCAAACTGTGACGAACCAAACTTTGTTCGTTTAGTTAAAGCCCTCGCCACCGAACAC
AACATCCCATTAATTGAAGTTCCAGATAACAAAGCTTTAGGTGAATGGGCTGGTCTCTGC
AAATTAGACAAAGATCTTGCTGCTCGTAAAGTTGTTGCTTGTTCAACCTTAGTCATCAAG
ACTTTCGGTAAAGAATCTGACGATTACAAATTCTTAATGGAATACATTTCAAAACAATAA
ATTTGTTAATGAAATAATATAAAATAAACTGGGAGAAACAATAATATGATTCACTCTTTT
TAAAAAAAAAA----------GCTTCAAACTGTGACGAACCAAACTTTGTTCGTTTAGTT
AAAGCCCTCGCCACCGAACACAACATCCCATTAATTGAAGTTCCAGATAACAAAGCTTTA
GGTGAATGGGCTGGTCTCTGCAAATTAGACAAAGATCTTGCTGCTCGTAAAGTTGTTGCT
TGTTCAACCTTAGTCATCAAGACTTTCGGTAAAGAATCTGACGATTACAAATTCTTAATG
GAATACATTTCAAAACAATAAATTTGTTAATGAAATAATATAAAATAAACGGGAGAAACA
ATAATA
Length of connected seq. 596
Full length Seq ID -
Full length Seq. -
Length of full length seq. -