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Callithrix_jacchus_cj1700_1.1

Organism name:
Callithrix jacchus (white-tufted-ear marmoset)
Infraspecific name:
Strain: cj1700
Isolate:
SNPRC 17081; SNPRC 17065; SNPRC 17066
Sex:
female
BioSample:
SAMN12783337
BioProject:
PRJNA566173
Submitter:
McDonnell Genome Institute at Washington University
Date:
2020/05/22
Assembly level:
Chromosome
Genome representation:
full
Excluded from RefSeq:
  • superseded by newer assembly for species
GenBank assembly accession:
GCA_009663435.2 (latest)
RefSeq assembly accession:
GCF_009663435.1 (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:
WJHW01
Assembly method:
FALCON v. 1.7.5
Reference guided assembly:
GCA_000004665.1
Genome coverage:
40.0x

IDs: 7157801 [UID] 19676488 [GenBank] 19716738 [RefSeq]

See Genome Information for Callithrix jacchus

Pathogen Detection Resources

There are 13 assemblies for this organism

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History (Show revision history)

Comment

In May 2020 this genome asssembly was updated by the addition of a chromosome Y sequence (GenBank accession CM023155.1) that had been assembled from BAC sequences by the David Page lab, creating assembly Callithrix_jacchus_cj1700_1.1 (accession GCA_009663435.2).

Global statistics

Total sequence length2,897,807,928
Total ungapped length2,859,800,486
Gaps between scaffolds37
Number of scaffolds993
Scaffold N5098,198,953
Scaffold L5012
Number of contigs1,335
Contig N5025,227,091
Contig L5031
Total number of chromosomes and plasmids24
Number of component sequences (WGS or clone)1,428

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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_009663445.2)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM018917.1=NC_048383.12
Chromosome 2CM018918.1=NC_048384.10
Chromosome 3CM018919.1=NC_048385.10
Chromosome 4CM018920.1=NC_048386.10
Chromosome 5CM018921.1=NC_048387.10
Chromosome 6CM018922.1=NC_048388.10
Chromosome 7CM018923.1=NC_048389.10
Chromosome 8CM018924.1=NC_048390.10
Chromosome 9CM018925.1=NC_048391.11
Chromosome 10CM018926.1=NC_048392.11
Chromosome 11CM018927.1=NC_048393.11
Chromosome 12CM018928.1=NC_048394.12
Chromosome 13CM018929.1=NC_048395.11
Chromosome 14CM018930.1=NC_048396.11
Chromosome 15CM018931.1=NC_048397.10
Chromosome 16CM018932.1=NC_048398.10
Chromosome 17CM018933.1=NC_048399.10
Chromosome 18CM018934.1=NC_048400.10
Chromosome 19CM018935.1=NC_048401.10
Chromosome 20CM018936.1=NC_048402.10
Chromosome 21CM018937.1=NC_048403.10
Chromosome 22CM018938.1=NC_048404.10
Chromosome XCM018939.1=NC_048405.10
Chromosome YCM023155.1=NC_048406.10
unplacedn/an/an/a930

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule2,897,807,9289932,859,800,48698,198,95334237
Chromosome 1AllAssembled moleculeUnlocalized scaffolds218,139,384217,961,735177,649532215,936,103215,758,454177,649136,177,821136,177,821125,02932320220
Chromosome 2Assembled molecule204,486,4792202,694,353145,226,168241
Chromosome 3Assembled molecule191,910,2232190,506,325165,247,08171
Chromosome 4Assembled molecule174,041,7702172,196,337142,188,527191
Chromosome 5Assembled molecule164,351,7652162,089,555105,254,654201
Chromosome 6Assembled molecule161,003,4062159,661,176130,490,949121
Chromosome 7Assembled molecule157,546,0582155,946,789120,239,484101
Chromosome 8Assembled molecule126,850,8042125,831,195102,738,40731
Chromosome 9AllAssembled moleculeUnlocalized scaffolds134,220,902134,044,658176,244321132,410,119132,233,875176,244109,610,031109,610,031176,24413130110
Chromosome 10AllAssembled moleculeUnlocalized scaffolds137,798,104137,671,225126,879431136,298,086136,171,207126,879111,671,150111,671,150126,87912120220
Chromosome 11AllAssembled moleculeUnlocalized scaffolds129,828,532129,688,756139,776321128,247,979128,108,203139,77695,102,74395,102,743139,77610100110
Chromosome 12AllAssembled moleculeUnlocalized scaffolds124,704,370124,486,764217,606422122,624,473122,406,867217,60693,559,11893,559,118118,45615150110
Chromosome 13AllAssembled moleculeUnlocalized scaffolds119,249,291118,934,817314,474321117,938,475117,624,001314,47475,235,05375,235,053314,47417170110
Chromosome 14AllAssembled moleculeUnlocalized scaffolds112,155,768112,090,31765,451431110,761,358110,695,90765,45198,443,39798,443,39765,45115150330
Chromosome 15Assembled molecule99,198,953197,799,17998,198,953101
Chromosome 16Assembled molecule97,817,134296,551,04389,147,62462
Chromosome 17Assembled molecule74,942,703173,844,72473,942,70351
Chromosome 18Assembled molecule47,031,477245,696,07644,314,312102
Chromosome 19Assembled molecule51,570,929149,969,50550,570,92961
Chromosome 20Assembled molecule45,615,054144,569,08744,615,05451
Chromosome 21Assembled molecule51,259,342150,530,30951,259,342110
Chromosome 22Assembled molecule51,300,780248,742,41827,103,969251
Chromosome XAssembled molecule148,168,1043145,989,40949,939,464302
Chromosome YAssembled molecule8,228,17497,828,1341,424,55518
unplacedAssembled molecule66,388,42293065,138,279127,728240