Rice Genome Facts

Common Name

Entries in Genbank

dbEST/
(Kb)
dbGSS/
(Kb)
dbPLN/
(Kb)
dbHTG/
(Kb)
Total Entriesa/
(Kb)
1252989
(603144.1kb)
408438
(250636.9kb)
135321
(704833.5kb)
494
(61698.2kb)
1797242
(1620312.7kb)

aThe Total Entries column is the sum of the entries from the dbEST, dbGSS, dbPLN, and dbHTG columns.

Transcript Assemblies

Database Current
Version
Build
Date
Singletons Seqs
Assembled
Total
Assemblies
Original
Fasta
TIGR Plant TAs 2 2006-06-05 197646 N/A 49870 Download
PlantGDB PUTs 163a 2008-03-13 N/A 62328 44644 Download
NCBI UniGene 84 2011-04-05 N/A 1213606 Download

Data was retrieved from NCBI on September 10 2011, transcript assemblies data current as of September 10 2011.

Papers

Pubmed Records:

See all papers within the last Week, Month or Year

MSU Rice Genome Annotation, Release 7

Features TE-related
Genes/Loci
Non-TE-related
Genes/Loci
Gene Number 16,941 39,045
Average Gene Size (bp) 3,223 2,853
Average Exon/Gene 4.2 4.9
Average Exon Length (bp) 512 318
Average Intron/Gene 3.2 3.9
Average Intron Lenght (bp) 346 418

Updated on 10/31/11

Genes from MSU Rice Genome Annotation, Release 7

Functional
Classification c
Genes/Loci Genes/Loci
(%)
Gene Models Gene Models
(%)
Putative 22,896 40.9% 31,047 46.8%
Expressed 13,816 24.7% 15,686 23.6%
Conserved Hypothetical 133 0.2% 133 0.2%
Hypothetical 2,200 3.9% 2,200 3.3%
TE-related d 16,941 30.3% 17,272 26.0%
Total 55,986 100% 66,338 100%

c: Small gene models (< 50 amino acids ) and pseudogenes were excluded from this analysis.
d:TE-related: Transposable-element related genes and gene models. The rice proteome was searched against the MSU Oryza Repeat Database with TBLASTN and against the TE-related Pfam domains with hmmpfam. Genes and gene models with matches above cut-offs were annotated as TE-related gene models.

Updated on 10/31/11



NSF Logo This work is supported by grants (DBI-0321538/DBI-0834043) from the National Science Foundation.