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
SHE462
Library SH
(Link to library)
Clone ID SHE462
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig -
Original site URL
Representative seq. ID
(Link to Original site)
Representative DNA sequence 
>SHE462 (SHE462Q) /CSM/SH/SHE4-C/SHE462Q.Seq.d/
AACGCCCTTACTTTTAATTATCTCTTTTATGTATGTTTACTTTTATGATATTAGTCTTTC
ACTCTTTCTATCCTTCATATTAAAAAACATTACTTTAAAGATTGGACTGTTTGATAAAAG
ATTGAACAAATGTGACAATGGATTGAAGATTAGTGTGAGTGACTTTTACACTTTTTTTTT
TCTAATTTTAACATAAAACAAATACATTAAAACAAATAATTAGATACAATCCTTATATTT
CGTATACAATGACACCTCATGATGAANAAGTCGACTCTTCANATTANAGGAATAATAGTA
GTATTTAAAACAAAATAAAAATGCATTACAATGGCCCTTCTGTTTGCAANATTAACGCTG
TACTGCTTAGGCGGTACAACGACACTTCCTACTCACATTGTAAACATGCATCTTTTATAA
AGTAATATAAAACAAGATTGTATCAATTAATTTAATAATAATGCTCAAATNCAAAXXXXX
XXXXX
sequence update 2002.10.25
Translated Amino Acid sequence 
TPLLLIISFMYVYFYDISLSLFLSFILKNITLKIGLFDKRLNKCDNGLKISVSDFYTFFF
LILT*nkyiktnn*iqslyfvyndts**xsrlfxlxe***ylkqnknalqwpfclqx*rc
ta*avqrhflltl*tcifykvi*nkivsinliimlkx---
Translated Amino Acid sequence (All Frames) 
Frame A:
naltfnylfyvclll*y*sftlsilhikkhyfkdwtv**kieqm*qwied*ce*llhfff
snfnikqih*nk*ldtilifriq*hlmmxkstlxixgiivvfktk*kcitmallfaxltl
yclggtttlpthivnmhll*snikqdcin*fnnnaqxq---


Frame B:
TPLLLIISFMYVYFYDISLSLFLSFILKNITLKIGLFDKRLNKCDNGLKISVSDFYTFFF
LILT*nkyiktnn*iqslyfvyndts**xsrlfxlxe***ylkqnknalqwpfclqx*rc
ta*avqrhflltl*tcifykvi*nkivsinliimlkx---


Frame C:
rpyf*lsllcmftfmilvfhsfypsy*ktll*rldclikd*tnvtmd*rlv*vtftlfff
*f*hktntlkqiirynpyisytmtphdexvdssxxrnnssi*nkikmhyngpsvcxinav
llrryndtsyshckhasfik*yktrlyqli***csnx---
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHE462 (SHE462Q) /CSM/SH/SHE4-C/SHE462Q.Seq.d/                        852   0.0
VHK356 (VHK356Q) /CSM/VH/VHK3-C/VHK356Q.Seq.d/                        842   0.0
SHE406 (SHE406Q) /CSM/SH/SHE4-A/SHE406Q.Seq.d/                        829   0.0
SHL478 (SHL478Q) /CSM/SH/SHL4-D/SHL478Q.Seq.d/                        827   0.0
SHA243 (SHA243Q) /CSM/SH/SHA2-B/SHA243Q.Seq.d/                        817   0.0
VHM471 (VHM471Q) /CSM/VH/VHM4-C/VHM471Q.Seq.d/                        785   0.0
VHB819 (VHB819Q) /CSM/VH/VHB8-A/VHB819Q.Seq.d/                        620   e-177
SHD560 (SHD560Q) /CSM/SH/SHD5-C/SHD560Q.Seq.d/                        620   e-177
AFI774 (AFI774Q) /CSM/AF/AFI7-D/AFI774Q.Seq.d/                        620   e-177
SHI835 (SHI835Q) /CSM/SH/SHI8-B/SHI835Q.Seq.d/                        613   e-174
own update 2002.12. 5
Homology vs DNA 

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

AF049230|AF049230.1 Dictyostelium discoideum LTR-retrotransposon Skipper, Gag (gag) gene, complete cds; and Pro (pro) and Pol (pol) genes, partial cds.   545   0.0    2
AC115612|AC115612.2 Dictyostelium discoideum chromosome 2 map 6245135-6357017 strain AX4, complete sequence.   392   0.0    3
AF017040|AF017040.1 Dictyostelium discoideum LTR-retrotransposon Skipper, Gag (gag) mRNA, complete cds; and Pro (pro) and Pol (pol) mRNA, partial cds.   545   e-177  2
AF017043|AF017043.1 Dictyostelium discoideum LTR-retrotransposon Skipper, partial genomic sequence, 5' end.   339   e-130  2
AF017042|AF017042.1 Dictyostelium discoideum LTR-retrotransposon Skipper, partial genomic sequence, 5' end.   315   e-126  2
AF017041|AF017041.1 Dictyostelium discoideum LTR-retrotransposon Skipper, partial genomic sequence, 5' end.   283   e-117  3
AF017046|AF017046.1 Dictyostelium discoideum LTR-retrotransposon Skipper, partial genomic sequence, 3' end.   321   8e-84  1
AF017047|AF017047.1 Dictyostelium discoideum LTR-retrotransposon Skipper, partial genomic sequence, 3' end.   313   2e-81  1
AF017045|AF017045.1 Dictyostelium discoideum LTR-retrotransposon Skipper, partial genomic sequence, 3' end.   313   2e-81  1
AF017044|AF017044.1 Dictyostelium discoideum LTR-retrotransposon Skipper, partial genomic sequence, 3' end.   170   3e-78  2
dna update 2006. 2.14
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AY125003_1(AY125003|pid:none) Calathea foliosa NADH dehydrogenas...    32   7.2
AY656084_1(AY656084|pid:none) Calathea metallica voucher Kress 9...    32   7.2
protein update 2008.11.15
PSORT 

 psg: 0.99  gvh: 0.44  alm: 0.31  top: 0.47  tms: 0.07  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: 1.00  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 : 1.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 28.0 %: endoplasmic reticulum
	 20.0 %: nuclear
	 16.0 %: cytoplasmic
	 16.0 %: mitochondrial
	  8.0 %: plasma membrane
	  4.0 %: Golgi
	  4.0 %: vesicles of secretory system
	  4.0 %: extracellular, including cell wall

>> prediction for SHE462 is end
5' end seq. ID SHE462F
5' end seq. 
>SHE462F.Seq
AACGCCCTTACTTTTAATTATCTCTTTTATGTATGTTTACTTTTATGATATTAGTCTTTC
ACTCTTTCTATCCTTCATATTAAAAAACATTACTTTAAAGATTGGACTGTTTGATAAAAG
ATTGAACAAATGTGACAATGGATTGAAGATTAGTGTGAGTGACTTTTACACTTTTTTTTT
TCTAATTTTAACATAAAACAAATACATTAAAACAAATAATTAGATACAATCCTTATATTT
CGTATACAATGACACCTCATGATGAANAAGTCGACTCTTCANATTANAGGAATAATAGTA
GTATTTAAAACAAAATAAAAATGCATTACAATGGCCCTTCTGTTTGCAANATTAACGCTG
TACTGCTTAGGCGGTACAACGACACTTCCTACTCACATTGTAAACATGCATCTTTTATAA
AGTAATATAAAACAAGATTGTATCAATTAATTTAATAATAATGCTCAAATNCAAANNNNN
NNNNN
Length of 5' end seq. 485
3' end seq. ID -
3' end seq. -
Length of 3' end seq. -
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -