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Source database (GenBank or RefSeq) File type

Rn_Celera

Organism name:

Rattus norvegicus (Norway rat)

Infraspecific name:

Strain: BN; Sprague-Dawley

BioSample:

SAMN03000701

BioProject:

PRJNA13999

Submitter:

Celera Genomics

Date:

2006/12/06

Assembly level:

Chromosome

Genome representation:

full

Excluded from RefSeq:

superseded by newer assembly for species

GenBank assembly accession:

GCA_000002265.1 (latest)

RefSeq assembly accession:

GCF_000002265.2 (suppressed) see latest RefSeq assembly for this species

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in GenBank: 385017 unplaced scaffolds
Different: chromosome 14.
Unplaced scaffolds shorter than 2 Kbp and some longer foreign scaffolds were omitted from the RefSeq assembly.

Data displayed for GenBank version

WGS Project:

AAHX01

IDs: 5448 [UID] 280818 [GenBank] 5448 [RefSeq]

See Genome Information for Rattus norvegicus

Pathogen Detection Resources

There are 14 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_000002265.1	≠	GCF_000002265.2	Rn_Celera	Chromosome	Latest GenBank, RefSeq suppressed
GCA_000002265.1	≠	GCF_000002265.1	Rn_Celera	Chromosome	Latest GenBank, RefSeq suppressed

Comment

This is the January 2003 combined whole genome shotgun assembly of Rattus norvegicus. It contains 29 million Brown Norway fragments sequenced by Celera and external sources and nearly eight million Celera-proprietary Sprague-Dawley sequence fragments. The assembly process relied on ... Celera's paired reads and BAC end reads from TIGR for long range order and orientation. Its scaffolds were mapped to chromosomes using STS maps. For more detailed information about whole genome sequencing and Celera's assembly process, please refer to Venter, J.C. et al. Science 2001. 291:1304-1351.
Annotation was added to the scaffolds in June 2007.  more

Global statistics

Total sequence length	2,931,643,592
Total ungapped length	2,807,682,847
Gaps between scaffolds	230
Number of scaffolds	392,288
Scaffold N50	25,208,765
Scaffold L50	35
Number of contigs	503,452
Contig N50	34,564
Contig L50	22,766
Total number of chromosomes and plasmids	21
Number of component sequences (WGS or clone)	503,452

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM000231.2	=	AC_000069.1	0
Chromosome 2	CM000232.2	=	AC_000070.1	0
Chromosome 3	CM000233.2	=	AC_000071.1	0
Chromosome 4	CM000234.2	=	AC_000072.1	0
Chromosome 5	CM000235.2	=	AC_000073.1	0
Chromosome 6	CM000236.2	=	AC_000074.1	0
Chromosome 7	CM000237.2	=	AC_000075.1	0
Chromosome 8	CM000238.2	=	AC_000076.1	0
Chromosome 9	CM000239.2	=	AC_000077.1	0
Chromosome 10	CM000240.1	=	AC_000078.1	0
Chromosome 11	CM000241.2	=	AC_000079.1	0
Chromosome 12	CM000242.1	=	AC_000080.1	0
Chromosome 13	CM000243.2	=	AC_000081.1	0
Chromosome 14	CM000244.2	n/a	n/a	0
Chromosome 15	CM000245.1	=	AC_000083.1	0
Chromosome 16	CM000246.2	=	AC_000084.1	0
Chromosome 17	CM000247.2	=	AC_000085.1	0
Chromosome 18	CM000248.2	=	AC_000086.1	0
Chromosome 19	CM000249.2	=	AC_000087.1	0
Chromosome 20	CM000250.2	=	AC_000088.1	0
Chromosome X	CM000251.2	=	AC_000089.1	0
unplaced	n/a	n/a	n/a	392,037

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps	Unspanned Gaps
All	2,931,643,592	392,288	2,807,682,847	25,208,765	111,164	230
Chromosome 1	256,108,954	30	243,195,880	25,244,221	10,137	29
Chromosome 2	240,783,705	15	230,867,881	39,144,563	10,166	14
Chromosome 3	167,630,578	13	161,012,885	84,795,085	6,919	12
Chromosome 4	171,150,164	11	164,697,249	43,311,724	6,619	10
Chromosome 5	165,072,255	12	157,945,155	25,443,941	7,322	11
Chromosome 6	138,621,033	5	133,891,277	97,689,842	5,876	4
Chromosome 7	131,452,414	13	125,442,490	39,313,205	5,720	12
Chromosome 8	122,991,585	14	117,885,584	27,430,032	4,864	13
Chromosome 9	110,527,509	10	106,083,325	21,563,798	4,606	9
Chromosome 10	106,206,776	4	103,318,038	94,037,496	4,715	3
Chromosome 11	84,937,337	6	81,625,273	20,954,668	3,473	5
Chromosome 12	48,189,084	14	44,152,371	27,552,867	2,671	13
Chromosome 13	106,223,454	9	101,645,031	23,100,506	4,448	8
Chromosome 14	103,687,266	9	99,282,539	25,208,765	4,274	8
Chromosome 15	100,506,098	14	95,204,172	57,264,411	4,127	13
Chromosome 16	82,415,181	10	78,275,335	17,611,849	3,370	9
Chromosome 17	85,779,851	13	81,156,793	20,325,774	3,880	12
Chromosome 18	82,529,676	9	78,871,929	27,546,319	3,294	8
Chromosome 19	56,646,538	4	54,667,460	28,842,146	2,723	3
Chromosome 20	55,089,234	18	50,364,284	11,152,534	2,740	17
Chromosome X	143,425,746	18	133,100,297	20,210,607	6,715	17
unplaced	371,669,154	392,037	364,997,599	866	2,505	0

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Rn_Celera

See Genome Information for Rattus norvegicus

Pathogen Detection Resources

There are 14 assemblies for this organism

History (Show revision history)

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