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Rnor_5.0

Organism name:
Rattus norvegicus (Norway rat)
Infraspecific name:
Strain: BN/SsNHsdMCW
BioSample:
SAMN02808218
BioProject:
PRJNA10629
Submitter:
Rat Genome Sequencing Consortium
Date:
2012/03/16
Synonyms:
rn5
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_000001895.3 (replaced)
RefSeq assembly accession:
GCF_000001895.4 (suppressed) see latest RefSeq assembly for this species
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT
  • Data displayed for GenBank version
WGS Project:
AABR06
Assembly method:
Newbler v. 2.0.0-PreRelease-01162009 paired with Phrap v. 0. 990329 for Sanger reads; CLC bio for Solid reads
Genome coverage:
3x BAC; 6x WGS ABI Sanger reads
Sequencing technology:
Sanger; SOLiD

IDs: 382928 [UID] 363128 [GenBank] 382928 [RefSeq]

See Genome Information for Rattus norvegicus

Pathogen Detection Resources

There are 14 assemblies for this organism

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History (Show revision history)

Comment

Global statistics

Total sequence length2,909,682,625
Total ungapped length2,573,083,111
Gaps between scaffolds8,109
Number of scaffolds10,847
Scaffold N502,178,346
Scaffold L50387
Number of contigs132,130
Contig N5052,491
Contig L5013,663
Total number of chromosomes and plasmids21
Number of component sequences (WGS or clone)112,651

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Assembly Information

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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 (GCA_000000225.3)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM000072.4=NC_005100.381
Chromosome 2CM000073.4=NC_005101.3123
Chromosome 3CM000074.4=NC_005102.365
Chromosome 4CM000075.4=NC_005103.378
Chromosome 5CM000076.4=NC_005104.378
Chromosome 6CM000077.4=NC_005105.340
Chromosome 7CM000078.4=NC_005106.399
Chromosome 8CM000079.4=NC_005107.350
Chromosome 9CM000080.4=NC_005108.336
Chromosome 10CM000081.4=NC_005109.347
Chromosome 11CM000082.4=NC_005110.354
Chromosome 12CM000083.4=NC_005111.335
Chromosome 13CM000084.4=NC_005112.350
Chromosome 14CM000085.4=NC_005113.341
Chromosome 15CM000086.4=NC_005114.382
Chromosome 16CM000087.4=NC_005115.343
Chromosome 17CM000088.4=NC_005116.345
Chromosome 18CM000089.4=NC_005117.334
Chromosome 19CM000090.4=NC_005118.322
Chromosome 20CM000091.4=NC_005119.334
Chromosome XCM000092.4=NC_005120.3141
unplacedn/an/an/a1,439

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule2,909,682,62510,8472,573,083,1112,178,346121,2838,109
Chromosome 1AllAssembled moleculeUnlocalized scaffolds290,468,227290,094,216374,0111,1181,03781267,414,887267,129,575285,3122,129,2952,129,29513,89012,21912,190291,0361,0360
Chromosome 2AllAssembled moleculeUnlocalized scaffolds285,436,618285,068,071368,547867744123244,774,589244,473,769300,8201,955,9001,955,9003,53911,27011,238327437430
Chromosome 3AllAssembled moleculeUnlocalized scaffolds184,002,104183,740,530261,57457150665167,146,593166,986,328160,2652,587,7972,587,7975,5457,4557,424315055050
Chromosome 4AllAssembled moleculeUnlocalized scaffolds248,824,638248,343,840480,79853846078172,578,916172,169,357409,5592,395,7322,395,73243,0516,8246,798264594590
Chromosome 5AllAssembled moleculeUnlocalized scaffolds177,410,427177,180,328230,09953045278160,413,757160,245,979167,7782,219,9722,219,9723,0707,7217,701204514510
Chromosome 6AllAssembled moleculeUnlocalized scaffolds156,992,134156,897,50894,62642238240137,219,528137,126,42593,1031,885,7841,885,7842,8686,1206,11373813810
Chromosome 7AllAssembled moleculeUnlocalized scaffolds143,779,861143,501,887277,97458748899133,232,926133,012,475220,4511,944,2171,944,2173,5476,6416,609324874870
Chromosome 8AllAssembled moleculeUnlocalized scaffolds132,623,603132,457,389166,21441836850125,174,931125,053,345121,5862,088,5802,088,5804,1665,6265,597293673670
Chromosome 9AllAssembled moleculeUnlocalized scaffolds121,697,944121,549,591148,35334330736113,528,456113,435,03893,4182,793,4432,793,4434,0425,1625,15573063060
Chromosome 10AllAssembled moleculeUnlocalized scaffolds112,338,145112,200,500137,64533028347107,253,206107,148,992104,2143,022,7133,249,5353,3375,0865,061252822820
Chromosome 11AllAssembled moleculeUnlocalized scaffolds93,624,63693,518,069106,5672812275484,594,29784,496,45097,8472,043,1222,043,1222,5793,3573,35072262260
Chromosome 12AllAssembled moleculeUnlocalized scaffolds54,533,54754,450,79682,7512992643548,034,22147,964,07970,1422,286,2722,286,2723,0673,5023,49482632630
Chromosome 13AllAssembled moleculeUnlocalized scaffolds118,865,235118,718,031147,20434529550105,321,025105,200,166120,8592,316,0232,316,0233,4284,7644,75682942940
Chromosome 14AllAssembled moleculeUnlocalized scaffolds115,265,452115,151,701113,75135531441106,549,070106,456,45392,6172,515,6812,515,6813,2605,0385,028103133130
Chromosome 15AllAssembled moleculeUnlocalized scaffolds114,763,217114,627,140136,07739731582102,848,745102,717,001131,7441,889,6441,889,6442,5774,8294,82273143140
Chromosome 16AllAssembled moleculeUnlocalized scaffolds90,155,11490,051,983103,1313232804383,332,32283,248,03484,2882,327,5792,327,5792,9713,9803,966142792790
Chromosome 17AllAssembled moleculeUnlocalized scaffolds92,654,00492,503,511150,4933042594584,162,48084,034,418128,0622,127,2742,127,2743,7374,1184,104142582580
Chromosome 18AllAssembled moleculeUnlocalized scaffolds87,368,73887,229,863138,8752742403481,579,93081,501,21678,7142,266,4462,266,44611,2793,4073,392152392390
Chromosome 19AllAssembled moleculeUnlocalized scaffolds73,001,19972,914,58786,6122001782257,948,39557,902,03346,3623,014,0923,014,0929,2123,3113,300111771770
Chromosome 20AllAssembled moleculeUnlocalized scaffolds57,866,20657,791,88274,3242091753452,114,47652,044,64269,8341,626,8371,626,8372,7582,9452,93691741740
Chromosome XAllAssembled moleculeUnlocalized scaffolds155,074,119154,597,545476,574697556141136,224,019135,956,459267,5601,551,4041,551,40410,0737,5047,440645555550
unplacedAssembled molecule2,937,4571,4391,636,3426,4864040