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Rn_Celera

Organism name:
Rattus norvegicus (Norway rat)
Infraspecific name:
Strain: BN; Sprague-Dawley
BioSample:
SAMN03000701
Submitter:
Celera Genomics
Date:
2006/12/06
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
n/a
RefSeq assembly accession:
GCF_000002265.2 (latest)
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
AAHX01

IDs: 5448 [UID] 5448 [RefSeq]

See Genome Information for Rattus norvegicus

There are 9 assemblies for this organism

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History (Show revision history)

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 length2,616,422,528
Total assembly gap length123,963,010
Gaps between scaffolds230
Number of scaffolds7,271
Scaffold N5027,430,032
Scaffold L5029
Number of contigs118,432
Contig N5039,779
Contig L5018,516
Total number of chromosomes and plasmids21

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
Assembly Unit: Primary Assembly (GCF_000000125.2)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM000231.2=AC_000069.10
Chromosome 2CM000232.2=AC_000070.10
Chromosome 3CM000233.2=AC_000071.10
Chromosome 4CM000234.2=AC_000072.10
Chromosome 5CM000235.2=AC_000073.10
Chromosome 6CM000236.2=AC_000074.10
Chromosome 7CM000237.2=AC_000075.10
Chromosome 8CM000238.2=AC_000076.10
Chromosome 9CM000239.2=AC_000077.10
Chromosome 10CM000240.1=AC_000078.10
Chromosome 11CM000241.2=AC_000079.10
Chromosome 12CM000242.1=AC_000080.10
Chromosome 13CM000243.2=AC_000081.10
Chromosome 14n/an/aAC_000082.10
Chromosome 15CM000245.1=AC_000083.10
Chromosome 16CM000246.2=AC_000084.10
Chromosome 17CM000247.2=AC_000085.10
Chromosome 18CM000248.2=AC_000086.10
Chromosome 19CM000249.2=AC_000087.10
Chromosome 20CM000250.2=AC_000088.10
Chromosome XCM000251.2=AC_000089.10
unplacedn/an/an/a7,020

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
All2,616,422,5287,2712,492,459,51827,430,032111,163230
Chromosome 1256,108,95430243,195,88025,244,22110,13729
Chromosome 2240,783,70515230,867,88139,144,56310,16614
Chromosome 3167,630,57813161,012,88584,795,0856,91912
Chromosome 4171,150,16411164,697,24943,311,7246,61910
Chromosome 5165,072,25512157,945,15525,443,9417,32211
Chromosome 6138,621,0335133,891,27797,689,8425,8764
Chromosome 7131,452,41413125,442,49039,313,2055,72012
Chromosome 8122,991,58514117,885,58427,430,0324,86413
Chromosome 9110,527,50910106,083,32521,563,7984,6069
Chromosome 10106,206,7764103,318,03894,037,4964,7153
Chromosome 1184,937,337681,625,27320,954,6683,4735
Chromosome 1248,189,0841444,152,37127,552,8672,67113
Chromosome 13106,223,4549101,645,03123,100,5064,4488
Chromosome 14103,687,266999,280,23425,208,7654,2758
Chromosome 15100,506,0981495,204,17257,264,4114,12713
Chromosome 1682,415,1811078,275,33517,611,8493,3709
Chromosome 1785,779,8511381,156,79320,325,7743,88012
Chromosome 1882,529,676978,871,92927,546,3193,2948
Chromosome 1956,646,538454,667,46028,842,1462,7233
Chromosome 2055,089,2341850,364,28411,152,5342,74017
Chromosome X143,425,74618133,100,29720,210,6076,71517
unplaced56,448,0907,02049,776,57517,2972,5030
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