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| Introduction of three strains
of rice |
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In BGI-RIS,PA64s (or
PeiAi64s, multiple-crossing resulted in 55% indica, 25% japonica and 20% javanica, sequenced by BGI-Shenzhen), 93-11
(Indica, sequenced by BGI-Shenzhen) and Syngenta
(Japonica, sequenced by Syngenta) data are well presented.
Particularly, 93-11 and PA64s are
parental cultivars of the super-hybrid rice, LYP9. |
| What's New |
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Newly designed genome viewer |
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Release of rice PA64s genome
and its comparative analysis with 93-11 and Syngenta |
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Transcript units and alternative splicing by high-throughput sequencing of rice transcriptome |
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Extracted blast result and
linkage to MapViewer |
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Updated genome annotation |
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4628 predicted ncRNA of PA64s |
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1155 predicted MicroRNA of PA64s |
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16,304 full length cDNA mapped to PA64s |
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37,162 Glean and 35,352 FgeneSH predicted genes of PA64s |
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10044 predicted ncRNA of 93-11 |
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3806 predicted MicroRNA of 93-11
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17,165 full length cDNA mapped to
93-11 |
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40,745 Glean and 38,130 FgeneSH
predicted genes of 93-11 |
| Download |
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Genome sequences of 93-11, PA64 and Syngenta |
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Annotation information of gene, repeats,
ncRNA, Promoter, CpG island etc. |
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Homolog between 93-11,PA64s and Syngenta
subspecies |
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Gene annotation updated (2008-10-28) on the
ftp site, according to pre-published paper "Improved annotatio n
of the rice (Oryza sativa) genomes" |
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Genes updated(2006-12-28), both the graphical
view and the ftp site, according to pre-published paper "Re-
annotation of the rice genome(s) by selective pre-masking of
intergenic transposable elements" |
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BGI-RIS: an integrated informa tion resource
and comparative analysis workbench for rice genomics |
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Latest version of Sequence
Assembly of Rice Genome( Syngenta ) (119 SuperScaffolds,
26,160 Scaffolds, 35,047 Contigs ) |
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14,827 full length cDNA mapped to Syngenta. |
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36,038 BGF and 36,757 FgeneSH
predicted genes of Syngenta. |
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Up to 4,723,468 SNPs identified
bet ween 93-11 and Syngenta . |
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| Tools & Services |
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Cloud computing BGI provides cloud computing service for a set of bioinformatic analysis, include sequence alignment, small RNA and transcriptome analysis, de novo genome assembly, gene structure and function annotation, as well as evolutionary and comparative analysis. |
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FGF (Fishing
Gene Family) is a useful tool for finding gene family and plotting
phylogenetic tree. Besides these, it also gives the gene
duplication evolutional information. |
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WEGO WEGO (Web Gene Ontology
Annotation Plot) is a useful tool for plotting GO annotation
results. |
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Blast (Basic
Local Alignment Search Tool) is a set of similarity search programs
designed to explore all of the available sequence database s
regardless of whether the query is protein or DNA. |
| About
BGI-RIS |
In addition to the comprehensive data of 93-11 and
PA64s sequenced by BGI, BGI-RIS will host
carefully curated genome information of Syngenta since we have
obtained permission from Syngenta to release their data as soon as
related paper is published.
In BGI-RIS, sequence contigs of 93-11, PA64s
and Syngenta have been further assembled and
anchored onto the rice chromosomes. We have annotated the rice
genomes for gene content, repetitive elements, and SNPs. Sequence
polymorphisms between different rice subspecies have also been
identified. Designed as a basic platform for rice study, BGI-RIS
presents the sequence d genomes and related information in
systematic and graphical ways for the convenience of in-depth
comparative studies.
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