Full Report

Send to:

Choose Destination

File
Clipboard
Collections

Download Assembly

Source database (GenBank or RefSeq) File type

IRGSP-1.0

Description:

Os-Nipponbare-Reference-IRGSP-1.0

Organism name:

Oryza sativa Japonica Group (Japanese rice)

Infraspecific name:

Cultivar: Nipponbare

BioSample:

SAMD00000397

BioProject:

PRJDB1747

Submitter:

National Institute of Agrobiological Sciences

Date:

2015/10/10

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_001433935.1 (latest)

RefSeq assembly accession:

GCF_001433935.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosomes MT, Pltd, B1

Data displayed for RefSeq version

IDs: 578461 [UID] 2581368 [GenBank] 2881698 [RefSeq]

See Genome Information for Oryza sativa

Pathogen Detection Resources

There are 107 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_001433935.1	≠	GCF_001433935.1	IRGSP-1.0	Chromosome	Latest GenBank, Latest RefSeq

Comment

Genome-Annotation-Data

##Genome-Annotation-Data-START##Annotation Provider::NCBI
Annotation Status::Full annotation
Annotation Name::Oryza sativa Japonica Group Annotation Release 102
Annotation Version::102
Annotation Pipeline::NCBI eukaryotic genome annotation pipeline
Annotation Software Version::8.1
Annotation Method::Best-placed RefSeq; Gnomon
Features Annotated::Gene; mRNA; CDS; ncRNA
##Genome-Annotation-Data-END##

Global statistics

Total sequence length	374,422,835
Total ungapped length	374,305,350
Gaps between scaffolds	0
Number of scaffolds	58
Scaffold N50	29,958,434
Scaffold L50	6
Number of contigs	305
Contig N50	7,711,345
Contig L50	17
Total number of chromosomes and plasmids	15
Number of component sequences (WGS or clone)	58

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	AP014957.1	=	NC_029256.1	0
Chromosome 2	AP014958.1	=	NC_029257.1	0
Chromosome 3	AP014959.1	=	NC_029258.1	0
Chromosome 4	AP014960.1	=	NC_029259.1	0
Chromosome 5	AP014961.1	=	NC_029260.1	0
Chromosome 6	AP014962.1	=	NC_029261.1	0
Chromosome 7	AP014963.1	=	NC_029262.1	0
Chromosome 8	AP014964.1	=	NC_029263.1	0
Chromosome 9	AP014965.1	=	NC_029264.1	0
Chromosome 10	AP014966.1	=	NC_029265.1	0
Chromosome 11	AP014967.1	=	NC_029266.1	0
Chromosome 12	AP014968.1	=	NC_029267.1	0
unplaced	n/a	n/a	n/a	43

Molecule name	GenBank ID		RefSeq ID
Mitochondrion MT	BA000029.3	=	NC_011033.1
Chloroplast Pltd	X15901.1	=	NC_001320.1
Mitochondrial Plasmid B1	D00293.1	=	NC_001751.1

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	373,795,655	55	373,678,170	29,958,434	256
Chromosome 1	43,270,923	1	43,262,523	43,270,923	12
Chromosome 2	35,937,250	1	35,932,150	35,937,250	6
Chromosome 3	36,413,819	1	36,404,619	36,413,819	12
Chromosome 4	35,502,694	1	35,486,294	35,502,694	46
Chromosome 5	29,958,434	1	29,952,534	29,958,434	14
Chromosome 6	31,248,787	1	31,226,938	31,248,787	5
Chromosome 7	29,697,621	1	29,694,021	29,697,621	9
Chromosome 8	28,443,022	1	28,440,022	28,443,022	3
Chromosome 9	23,012,720	1	23,004,620	23,012,720	18
Chromosome 10	23,207,287	1	23,191,462	23,207,287	28
Chromosome 11	29,021,106	1	29,008,796	29,021,106	70
Chromosome 12	27,531,856	1	27,525,655	27,531,856	17
unplaced	550,136	43	548,536	13,061	16

Molecule	Total Length
All	627,180
Mitochondrion MT	490,520
Chloroplast Pltd	134,525
Mitochondrial Plasmid B1	2,135

Assembly

Genome Assembly

Result Filters

Organism group

Status

Assembly level

RefSeq category

Exclude

Annotation status

Taxonomy check status

Relation to type material

Assembly type

Sequence release date

Custom date range

Contig N50

Custom range

Scaffold N50

Custom range

Additional filters

Send to:

Download Assembly

IRGSP-1.0

See Genome Information for Oryza sativa

Pathogen Detection Resources

There are 107 assemblies for this organism

History (Show revision history)

Comment

Genome-Annotation-Data

Global statistics

Supplemental Content

Access the data

Assembly Information

Related Information

PubMed articles for this assembly

Recent activity

Global assembly definition

Assembly statistics

Assembly Unit Name
Primary Assembly
non-nuclear