Gene_locus Report for: orysj-q0jhi5 Oryza sativa subsp. japonica (Rice) os01g0862000 protein
Relationship
(Below N is a link to NCBI taxonomic web page and E link to ESTHER at designed phylum.) cellular organisms: N E > Eukaryota: N E > Viridiplantae: N E > Streptophyta: N E > Streptophytina: N E > Embryophyta: N E > Tracheophyta: N E > Euphyllophyta: N E > Spermatophyta: N E > Magnoliophyta: N E > Mesangiospermae: N E > Liliopsida: N E > Petrosaviidae: N E > commelinids: N E > Poales: N E > Poaceae: N E > BOP clade: N E > Oryzoideae: N E > Oryzeae: N E > Oryzinae: N E > Oryza: N E > Oryza sativa: N E > Oryza sativa Japonica Group: N E ABHD18 :
orysj-q6h7q9 Oryza sativa (Rice) Oryza glaberrima (African rice),. Uncharacterized protein .
BD-FAE :
orysj-b9eya5 Oryza sativa subsp. japonica, Oryza sativa subsp. indica (Rice) Oryza nivara (Indian wild rice); Oryza glumipatula Putative uncharacterized protein .
Carboxypeptidase_S10 :
orysj-q0dud7 Oryza sativa subsp. japonica (Rice) Os03g0192100 protein .
Duf_726 :
orysj-q7xcx3 Oryza sativa subsp. japonica (Rice) subsp. indica Putative uncharacterized protein .
Duf_829 :
orysj-q0d9a4 Oryza sativa subsp. japonica (Rice) Os06g0730300 protein ,
orysj-q5z419 Oryza sativa subsp. japonica (Rice) Integral membrane protein-like (Putative uncharacterized protein) ,
orysj-q6z6i1 Oryza sativa subsp. japonica indica (Rice) Putative uncharacterized protein P0030G11.19 (Os02g0133900 protein) (Putative uncharacterized protein P0585B01.4) .
Duf_1350 :
orysj-q7f8x1 Oryza sativa subsp. japonica (Rice) OJ000315_02.20 protein .
Epoxide_hydrolase :
orysj-q0djj0 Oryza sativa subsp. japonica subsp. indica (Rice) cDNA clone:001-022-G09, full insert sequence .
Glutamyl_Peptidase_S9 :
orysj-cgep Oryza sativa subsp. japonica (Rice); O. meridionalis; O. glumipatula; O. nivara (Indian wild rice); O. rufipogon (Brownbeard rice); O. glaberrima; O. barthii; O. brachyantha; O. punctata (Red rice). Probable glutamyl endopeptidase, chloroplastic .
Haloperoxidase :
orysj-b9gbb7 Oryza sativa subsp. japonica (Rice) Putative uncharacterized protein .
Hydroxynitrile_lyase :
orysj-q0d4u5 Oryza sativa (Rice), Oryza glaberrima (African rice, os07g0603600 protein (fragment) ,
orysj-q0jga1 Oryza sativa subsp. japonica subsp. indica (Rice) Os01g0934600 protein .
Monoglyceridelipase_lysophospholip :
orysj-b9eub8 Oryza sativa subsp. japonica (Rice) Putative uncharacterized protein .
NLS3-Tex30 :
orysj-b9fn42 Oryza sativa subsp. japonica subsp. indica (Rice) Oryza glaberrima (African rice), Oryza brachyantha, Putative uncharacterized protein .
Pectinacetylesterase-Notum :
orysj-b9fkb0 Oryza sativa subsp. japonica (Rice) subsp. indica (Rice), Oryza glaberrima (African rice) Putative uncharacterized protein ,
orysj-q5jl22 Oryza sativa subsp. japonica (Rice) subsp. indica (Rice); Oryza glaberrima (African rice) cDNA clone:002-101-G02, full insert sequence ,
orysj-q6yvk6 Oryza sativa subsp. japonica (Rice) subsp. indica (Rice); Oryza glaberrima (African rice) cDNA clone:J013158P10 Putative uncharacterized protein ,
orysj-q65xv3 Oryza sativa subsp. japonica (Rice) Putative uncharacterized protein P0016H04.15 ,
orysj-q94d71 Oryza sativa subsp. japonica (Rice) subsp. indica, Oryza glaberrima (African rice), Putative uncharacterized protein .
Plant_carboxylesterase :
orysj-q0iq98 Oryza sativa subsp. japonica (Rice); Oryza glaberrima (African rice). Os12g0135800 protein ,
orysj-b9gbs4 Oryza sativa subsp. japonica (Rice); Oryza glaberrima (African rice). Os11g0139000 protein ,
orysj-b9gbs1 Oryza sativa subsp. japonica (Rice); Oryza rufipogon (Brownbeard rice) (Asian wild rice). Os12g0135500 protein ,
orysj-a0a0p0y6l9 Oryza sativa subsp. japonica (Rice). Os12g0135500 protein .
Plant_phospholipase :
orysj-pla4 Oryza sativa subsp. japonica (Rice). Phospholipase A1-II 4 ,
orysj-pla1 Oryza sativa subsp. japonica ; indica (Rice). Phospholipase A1-II 1 .
RsbQ-like :
orysj-b9fi05 Oryza sativa subsp. japonica subsp. indica (Rice) Os05g0179900 Putative uncharacterized protein ,
orysj-q10j20 Oryza sativa subsp. japonica subsp. indica (Rice) High tillering - Dwarf D14 like OsDLK1 Orthologue of KAI2 putative hydrolases Warning: This entry is a compilation of different species or line or strain with more than 90% amino acide identity. You can
retrieve all strain data
(Below N is a link to NCBI taxonomic web page and E link to ESTHER at designed phylum.) Oryza sativa Japonica Group:
N ,
E .
Molecular evidence
Database
No mutation No structure No kinetic No Substrate No inhibitor
Sequence
Graphical view for this peptide sequence: orysj-q0jhi5 Colored MSA for 6_AlphaBeta_hydrolase (raw)
MAASLRASSSSLRSRLLSSSSAAWSPWSHVLSSSVHSEASNQTETLAFDE
IQLSPEKPSTATAFVLHGLLGSGRNWRSFSRALASELRDRSPSDEWRMVL
VDLRNHGRSAGIKGLRPPHDMSTAARDLADLVKARGWAWPDVVVGHSMGG
KVALDFAESCSRGDYGESADLPKQNSFGCLILFLVK
Legend
This sequence has been compared to family alignement (MSA) red => minority aminoacid blue => majority aminoacid color intensity => conservation rate title => sequence position(MSA position)aminoacid rate Catalytic site Catalytic site in the MSA
M A A S L R A S S S S L R S R L L S S S S A A W S P W S H V L S S S V H S E A S N Q T E T L A F D E I Q L S P E K P S T A T A F V L H G L L G S G R N W R S F S R A L A S E L R D R S P S D E W R M V L V D L R N H G R S A G I K G L R P P H D M S T A A R D L A D L V K A R G W A W P D V V V G H S M G G K V A L D F A E S C S R G D Y G E S A D L P K Q N S F G C L I L F L V K
References
Title: Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thalianaItoh T , Tanaka T , Barrero RA , Yamasaki C , Fujii Y , Hilton PB , Antonio BA , Aono H , Apweiler R and Sasaki T <85 more author(s)> Itoh T , Tanaka T , Barrero RA , Yamasaki C , Fujii Y , Hilton PB , Antonio BA , Aono H , Apweiler R , Bruskiewich R , Bureau T , Burr F , Costa de Oliveira A , Fuks G , Habara T , Haberer G , Han B , Harada E , Hiraki AT , Hirochika H , Hoen D , Hokari H , Hosokawa S , Hsing YI , Ikawa H , Ikeo K , Imanishi T , Ito Y , Jaiswal P , Kanno M , Kawahara Y , Kawamura T , Kawashima H , Khurana JP , Kikuchi S , Komatsu S , Koyanagi KO , Kubooka H , Lieberherr D , Lin YC , Lonsdale D , Matsumoto T , Matsuya A , McCombie WR , Messing J , Miyao A , Mulder N , Nagamura Y , Nam J , Namiki N , Numa H , Nurimoto S , O'Donovan C , Ohyanagi H , Okido T , Oota S , Osato N , Palmer LE , Quetier F , Raghuvanshi S , Saichi N , Sakai H , Sakai Y , Sakata K , Sakurai T , Sato F , Sato Y , Schoof H , Seki M , Shibata M , Shimizu Y , Shinozaki K , Shinso Y , Singh NK , Smith-White B , Takeda J , Tanino M , Tatusova T , Thongjuea S , Todokoro F , Tsugane M , Tyagi AK , Vanavichit A , Wang A , Wing RA , Yamaguchi K , Yamamoto M , Yamamoto N , Yu Y , Zhang H , Zhao Q , Higo K , Burr B , Gojobori T , Sasaki T (- 85) Ref: Genome Res, 17 :175, 2007 : PubMed Abstract ESTHER: Itoh_2007_Genome.Res_17_175 PubMedSearch: Itoh 2007 Genome.Res 17 175 PubMedID: 17210932 Gene_locus related to this paper: orysa-Q7XTC5 ,
orysa-Q852M6 ,
orysa-Q8GSE8 ,
orysa-Q9FYP7 ,
orysa-Q5ZA26 ,
orysa-Q5JLP6 ,
orysa-Q8H5P5 ,
orysa-Q7F1Y5 ,
orysa-cbp3 ,
orysa-cbpx ,
orysa-Q6YSZ8 ,
orysa-Q9FW17 ,
orysa-Q84QZ6 ,
orysa-Q0JK71 ,
orysa-B9EWJ8 ,
orysa-Q6ZDG6 ,
orysa-Q6ZDG5 ,
orysa-Q658B2 ,
orysa-Q5N7L1 ,
orysa-Q8RYV9 ,
orysa-Q8H3R3 ,
orysa-Q5SNH3 ,
orysa-pir7a ,
orysa-q2qnj4 ,
orysa-q2qyj1 ,
orysa-q2r077 ,
orysa-Q4VWY7 ,
orysa-q5smv5 ,
orysa-q5z901 ,
orysa-Q5ZBI5 ,
orysa-q6atz0 ,
orysa-q6i5q3 ,
orysa-q6j657 ,
orysa-q6k4q2 ,
orysj-q6yse8 ,
orysa-q6yy42 ,
orysa-q6yzk1 ,
orysa-q6z8b1 ,
orysa-q6z995 ,
orysa-q6zjq6 ,
orysa-q7x7y5 ,
orysa-Q7XC50 ,
orysa-q7xr62 ,
orysa-q7xr63 ,
orysa-q7xsg1 ,
orysa-q7xsq2 ,
orysa-q7xts6 ,
orysa-q7xv53 ,
orysa-Q8LQS5 ,
orysa-Q8RZ79 ,
orysa-Q8S0U8 ,
orysa-Q8W3C6 ,
orysa-Q9LHX5 ,
orysa-q53m20 ,
orysa-q53nd8 ,
orysa-q60e79 ,
orysa-q67iz2 ,
orysa-q67iz3 ,
orysa-q67iz7 ,
orysa-q67iz8 ,
orysa-q67j02 ,
orysa-q67j05 ,
orysa-q67j09 ,
orysa-q67j10 ,
orysa-q67tr6 ,
orysa-q67tv0 ,
orysa-q69j38 ,
orysa-q69y21 ,
orysa-q75hy1 ,
orysa-q75hy2 ,
orysa-Q0J0A4 ,
orysa-q651a8 ,
orysa-q652g4 ,
orysa-q688m8 ,
orysa-Q6H8G1 ,
orysi-a2z179 ,
orysi-a2zef2 ,
orysi-b8a7e6 ,
orysi-b8a7e7 ,
orysi-b8bfe5 ,
orysi-b8bhp9 ,
orysj-b9fi05 ,
orysj-q0djj0 ,
orysj-q0jaf0 ,
orysj-q0jga1 ,
orysj-q0jhi5 ,
orysj-q5jl22 ,
orysj-q5jlw7 ,
orysj-q6h7q9 ,
orysj-q6yvk6 ,
orysj-q7f8x1 ,
orysj-q7xcx3 ,
orysj-q9fwm6 ,
orysj-q10j20 ,
orysj-q10ss2 ,
orysj-q69uw6 ,
orysj-q94d71 ,
orysj-q0iq98 ,
orysj-b9gbs4 ,
orysj-b9gbs1 Abstract
We present here the annotation of the complete genome of rice Oryza sativa L. ssp. japonica cultivar Nipponbare. All functional annotations for proteins and non-protein-coding RNA (npRNA) candidates were manually curated. Functions were identified or inferred in 19,969 (70%) of the proteins, and 131 possible npRNAs (including 58 antisense transcripts) were found. Almost 5000 annotated protein-coding genes were found to be disrupted in insertional mutant lines, which will accelerate future experimental validation of the annotations. The rice loci were determined by using cDNA sequences obtained from rice and other representative cereals. Our conservative estimate based on these loci and an extrapolation suggested that the gene number of rice is approximately 32,000, which is smaller than previous estimates. We conducted comparative analyses between rice and Arabidopsis thaliana and found that both genomes possessed several lineage-specific genes, which might account for the observed differences between these species, while they had similar sets of predicted functional domains among the protein sequences. A system to control translational efficiency seems to be conserved across large evolutionary distances. Moreover, the evolutionary process of protein-coding genes was examined. Our results suggest that natural selection may have played a role for duplicated genes in both species, so that duplication was suppressed or favored in a manner that depended on the function of a gene.
Title: The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome informationOhyanagi H , Tanaka T , Sakai H , Shigemoto Y , Yamaguchi K , Habara T , Fujii Y , Antonio BA , Nagamura Y and Sasaki T <4 more author(s)> Ohyanagi H , Tanaka T , Sakai H , Shigemoto Y , Yamaguchi K , Habara T , Fujii Y , Antonio BA , Nagamura Y , Imanishi T , Ikeo K , Itoh T , Gojobori T , Sasaki T (- 4) Ref: Nucleic Acids Research, 34 :D741, 2006 : PubMed Abstract ESTHER: Ohyanagi_2006_Nucleic.Acids.Res_34_D741 PubMedSearch: Ohyanagi 2006 Nucleic.Acids.Res 34 D741 PubMedID: 16381971 Gene_locus related to this paper: orysa-Q9FW17 ,
orysa-Q0JK71 ,
orysa-B9EWJ8 ,
orysa-Q5N7L1 ,
orysa-Q5N7J6 ,
orysa-pir7a ,
orysa-q2qyi1 ,
orysa-q2qyj1 ,
orysa-q2rbb3 ,
orysj-q6yse8 ,
orysa-q6yzk1 ,
orysa-Q8S0U8 ,
orysa-Q84ZY8 ,
orysa-Q0J0A4 ,
orysi-a2z179 ,
orysi-a2zef2 ,
orysi-b8a7e6 ,
orysi-b8a7e7 ,
orysi-b8bfe5 ,
orysi-b8bhp9 ,
orysj-b9fi05 ,
orysj-q0d4u5 ,
orysj-q0djj0 ,
orysj-q0jaf0 ,
orysj-q0jga1 ,
orysj-q0jhi5 ,
orysj-q5jl22 ,
orysj-q5jlw7 ,
orysj-q6h7q9 ,
orysj-q6yvk6 ,
orysj-q7f8x1 ,
orysj-q7xcx3 ,
orysj-q9fwm6 ,
orysj-q10j20 ,
orysj-q10ss2 ,
orysj-q69uw6 ,
orysj-q94d71 ,
orysj-q0iq98 ,
orysj-b9gbs4 ,
orysj-b9gbs1 Abstract
With the completion of the rice genome sequencing, a standardized annotation is necessary so that the information from the genome sequence can be fully utilized in understanding the biology of rice and other cereal crops. An annotation jamboree was held in Japan with the aim of annotating and manually curating all the genes in the rice genome. Here we present the Rice Annotation Project Database (RAP-DB), which has been developed to provide access to the annotation data. The RAP-DB has two different types of annotation viewers, BLAST and BLAT search, and other useful features. By connecting the annotations to other rice genomics data, such as full-length cDNAs and Tos17 mutant lines, the RAP-DB serves as a hub for rice genomics. All of the resources can be accessed through http://rapdb.lab.nig.ac.jp/.
Title: The map-based sequence of the rice genome.Matsumo T , Sasaki T Ref: Nature, 436 :793, 2005 : PubMed Abstract ESTHER: Matsumoto_2005_Nature_436_793 PubMedSearch: Matsumoto 2005 Nature 436 793 PubMedID: 16100779 Gene_locus related to this paper: orysa-Q9FRJ0 ,
orysa-Q7XTC5 ,
orysa-Q852M6 ,
orysa-Q8GSE8 ,
orysa-Q9FYP7 ,
orysa-Q5ZBH3 ,
orysa-Q5ZA26 ,
orysa-Q5JLP6 ,
orysa-Q8H5P5 ,
orysa-Q7F1Y5 ,
orysa-Q949C9 ,
orysa-cbp3 ,
orysa-cbpx ,
orysa-Q6YSZ8 ,
orysa-Q8S5X5 ,
orysa-Q8LIG3 ,
orysa-Q6K7F5 ,
orysa-Q69UB1 ,
orysa-Q9FW17 ,
orysa-Q337C3 ,
orysa-Q84QZ6 ,
orysa-Q84QY7 ,
orysa-Q851E7 ,
orysa-Q851E3 ,
orysa-Q0JK71 ,
orysa-Q8S1D9 ,
orysa-Q5N8V4 ,
orysa-Q8GTK2 ,
orysa-B9EWJ8 ,
orysa-Q8H3K6 ,
orysa-Q6ZDG8 ,
orysa-Q6ZDG6 ,
orysa-Q6ZDG5 ,
orysa-Q658B2 ,
orysa-Q5N7L1 ,
orysa-Q8RYV9 ,
orysa-Q8H3R3 ,
orysa-Q5SNH3 ,
orysa-Q8W0F0 ,
orysa-pir7a ,
orysa-q2qnj4 ,
orysa-q2qnt9 ,
orysa-q2qx94 ,
orysa-q2qyj1 ,
orysa-q2r051 ,
orysa-q2r077 ,
orysa-Q4VWY7 ,
orysa-q5nbu1 ,
orysa-q5smv5 ,
orysa-q5vnp5 ,
orysa-q5vrt2 ,
orysa-q5w6c5 ,
orysa-q5z5a3 ,
orysa-q5z901 ,
orysa-Q5ZBI5 ,
orysa-q6atz0 ,
orysa-q6ave2 ,
orysa-q6h7i6 ,
orysa-q6i5q3 ,
orysa-q6j657 ,
orysa-q6k3d9 ,
orysa-q6k4q2 ,
orysa-q6l5b6 ,
orysj-q6yse8 ,
orysa-q6yy42 ,
orysa-q6yzk1 ,
orysa-q6z8b1 ,
orysa-q6z995 ,
orysa-q6zjq6 ,
orysa-q7x7y5 ,
orysa-Q7XC50 ,
orysa-q7xkj9 ,
orysa-q7xr62 ,
orysa-q7xr63 ,
orysa-q7xsg1 ,
orysa-q7xsq2 ,
orysa-q7xts6 ,
orysa-q7xv53 ,
orysa-Q8LQS5 ,
orysa-Q8RZ79 ,
orysa-Q8S0U8 ,
orysa-Q8W3C6 ,
orysa-Q9LHX5 ,
orysa-q33aq0 ,
orysa-q53lh1 ,
orysa-q53m20 ,
orysa-q53nd8 ,
orysa-q60e79 ,
orysa-q67iz2 ,
orysa-q67iz3 ,
orysa-q67iz7 ,
orysa-q67iz8 ,
orysa-q67j02 ,
orysa-q67j05 ,
orysa-q67j09 ,
orysa-q67j10 ,
orysa-q67tr6 ,
orysa-q67tv0 ,
orysa-q69j38 ,
orysa-q69k08 ,
orysa-q69md7 ,
orysa-q69me0 ,
orysa-q69pf3 ,
orysa-q69xr2 ,
orysa-q69y17 ,
orysa-q69y21 ,
orysa-q75hy1 ,
orysa-q75hy2 ,
orysa-q75i01 ,
orysa-Q94JD7 ,
orysa-Q0J0A4 ,
orysa-q651a8 ,
orysa-q652g4 ,
orysa-q688m0 ,
orysa-q688m8 ,
orysa-q688m9 ,
orysa-Q6H8G1 ,
orysi-a2z179 ,
orysi-a2zef2 ,
orysi-b8a7e6 ,
orysi-b8a7e7 ,
orysi-b8bfe5 ,
orysi-b8bhp9 ,
orysj-b9fi05 ,
orysj-b9fkb0 ,
orysj-cgep ,
orysj-q0djj0 ,
orysj-q0dud7 ,
orysj-q0jaf0 ,
orysj-q0jga1 ,
orysj-q0jhi5 ,
orysj-q5jl22 ,
orysj-q5jlw7 ,
orysj-q6h7q9 ,
orysj-q6yvk6 ,
orysj-q7f8x1 ,
orysj-q7xcx3 ,
orysj-q9fwm6 ,
orysj-q10j20 ,
orysj-q10ss2 ,
orysj-q69uw6 ,
orysj-q94d71 ,
orysj-q338c0 ,
orysj-b9gbs1 ,
orysj-a0a0p0y6l9 ,
orysj-pla4 ,
orysj-pla1 Other Papers
