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Rnor_6.0

Organism name:
Rattus norvegicus (Norway rat)
Infraspecific name:
Strain: mixed
Sex:
pooled males and females
BioSample:
SAMN02808228
BioProject:
PRJNA10629
Submitter:
Rat Genome Sequencing Consortium
Date:
2014/07/01
Synonyms:
rn6
Assembly level:
Chromosome
Genome representation:
full
Excluded from RefSeq:
  • superseded by newer assembly for species
GenBank assembly accession:
GCA_000001895.4 (latest)
RefSeq assembly accession:
GCF_000001895.5 (suppressed) see latest RefSeq assembly for this species
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AABR07
Assembly method:
Atlas Assembly suite v. 2.0; CLCbio v. 1.0; Velvet v. 1.0; PBjelly v. 2.0
Genome coverage:
3x BAC; 6x WGS ABI Sanger reads; 10.0x PacBio
Sequencing technology:
Sanger; SOLiD; PacBio

IDs: 191871 [UID] 1156538 [GenBank] 1174938 [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 length2,870,184,193
Total ungapped length2,729,985,504
Gaps between scaffolds440
Number of scaffolds1,395
Scaffold N5014,986,627
Scaffold L5065
Number of contigs75,697
Contig N50100,461
Contig L507,356
Total number of chromosomes and plasmids23
Number of component sequences (WGS or clone)75,996

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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
non-nuclear
Assembly Unit: Primary Assembly (GCA_000000225.4)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM000072.5=NC_005100.429
Chromosome 2CM000073.5=NC_005101.423
Chromosome 3CM000074.5=NC_005102.424
Chromosome 4CM000075.5=NC_005103.416
Chromosome 5CM000076.5=NC_005104.419
Chromosome 6CM000077.5=NC_005105.411
Chromosome 7CM000078.5=NC_005106.424
Chromosome 8CM000079.5=NC_005107.411
Chromosome 9CM000080.5=NC_005108.47
Chromosome 10CM000081.5=NC_005109.414
Chromosome 11CM000082.5=NC_005110.416
Chromosome 12CM000083.5=NC_005111.412
Chromosome 13CM000084.5=NC_005112.412
Chromosome 14CM000085.5=NC_005113.410
Chromosome 15CM000086.5=NC_005114.414
Chromosome 16CM000087.5=NC_005115.412
Chromosome 17CM000088.5=NC_005116.414
Chromosome 18CM000089.5=NC_005117.410
Chromosome 19CM000090.5=NC_005118.43
Chromosome 20CM000091.5=NC_005119.410
Chromosome XCM000092.5=NC_005120.435
Chromosome YCM002824.1=NC_024475.128
unplacedn/an/an/a578

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule2,870,167,8801,3942,729,969,19114,986,62774,302440
Chromosome 1AllAssembled moleculeUnlocalized scaffolds283,162,565282,763,074399,491875829268,374,195268,062,321311,87412,804,86812,804,86828,7067,7957,7237257570
Chromosome 2AllAssembled moleculeUnlocalized scaffolds266,967,186266,435,125532,061694623252,584,942252,237,699347,24316,349,51616,349,51634,4587,2147,09312145450
Chromosome 3AllAssembled moleculeUnlocalized scaffolds178,056,123177,699,992356,131674324170,584,107170,398,833185,27415,033,30115,033,30133,2614,1434,0727142420
Chromosome 4AllAssembled moleculeUnlocalized scaffolds184,892,634184,226,339666,295442816177,472,550177,004,499468,05115,975,40715,975,40766,1943,9653,8877827270
Chromosome 5AllAssembled moleculeUnlocalized scaffolds174,080,562173,707,219373,343452619166,268,739166,064,745203,99413,416,65013,416,65040,6514,2904,2197125250
Chromosome 6AllAssembled moleculeUnlocalized scaffolds148,151,510147,991,367160,143352411141,941,931141,825,688116,24315,961,31315,961,31316,3183,4803,4512923230
Chromosome 7AllAssembled moleculeUnlocalized scaffolds146,118,970145,729,302389,668411724139,044,652138,795,176249,47614,154,60014,154,60026,3214,1834,0849916160
Chromosome 8AllAssembled moleculeUnlocalized scaffolds133,521,117133,307,652213,465372611128,671,332128,533,652137,68015,957,00815,957,00836,7893,1923,1276525250
Chromosome 9AllAssembled moleculeUnlocalized scaffolds122,305,777122,095,297210,48026197116,900,579116,788,919111,66014,689,58414,689,58448,6382,9922,9583418180
Chromosome 10AllAssembled moleculeUnlocalized scaffolds112,836,900112,626,471210,429311714109,710,852109,586,475124,37714,881,23814,881,23826,0632,5642,5224216160
Chromosome 11AllAssembled moleculeUnlocalized scaffolds90,703,39990,463,843239,5562591687,335,73487,217,074118,66018,269,90518,269,90524,5371,9791,94138880
Chromosome 12AllAssembled moleculeUnlocalized scaffolds52,832,33752,716,770115,56725131249,899,04549,824,53174,51410,800,63210,800,63214,8851,9601,9293112120
Chromosome 13AllAssembled moleculeUnlocalized scaffolds114,277,773114,033,958243,815352312108,781,963108,637,471144,49217,229,95317,229,95323,8642,6992,6564322220
Chromosome 14AllAssembled moleculeUnlocalized scaffolds115,679,675115,493,446186,229281810109,595,253109,479,132116,12117,423,68717,423,68731,4513,0332,9963717170
Chromosome 15AllAssembled moleculeUnlocalized scaffolds111,505,721111,246,239259,482241014106,223,762106,067,129156,63327,786,61927,786,61928,4412,9702,89773990
Chromosome 16AllAssembled moleculeUnlocalized scaffolds90,877,35590,668,790208,56527151286,268,16186,167,080101,0818,759,3378,759,33733,2992,4232,3843914140
Chromosome 17AllAssembled moleculeUnlocalized scaffolds91,017,53890,843,779173,75924101487,123,39086,981,899141,49122,490,03122,490,03123,8482,2672,22641990
Chromosome 18AllAssembled moleculeUnlocalized scaffolds88,349,65188,201,929147,7221771084,637,98084,542,32995,65152,752,07752,752,07745,6221,9841,95133660
Chromosome 19AllAssembled moleculeUnlocalized scaffolds62,413,49962,275,575137,924118359,946,09159,891,57654,51514,277,24414,277,24453,2451,7851,75629770
Chromosome 20AllAssembled moleculeUnlocalized scaffolds56,326,88656,205,956120,93023131054,136,67654,058,25378,42321,848,13521,848,13529,2661,5651,5372812120
Chromosome XAllAssembled moleculeUnlocalized scaffolds160,644,916159,970,021674,895663135146,791,476146,479,700311,77611,448,66711,448,66740,5706,1455,98615930300
Chromosome YAllAssembled moleculeUnlocalized scaffolds72,397,7103,310,45869,087,2522912870,106,0103,189,45866,916,5525,447,8793,310,4586,483,517371225000
unplacedAssembled molecule13,048,0765787,569,77181,6531,6370
MoleculeTotal
Length
Mitochondrion MT16,313