Rana temporaria

common frog

Included in the VGP.

- S3 File Index -- S3 Interactive Viewer -- NCBI Taxonomy Browser -


Resource Primary Assembly Alternate Assembly
GenBank aRanTem1: GCA_905171775.1 aRanTem1: GCA_905171725.1
ENA aRanTem1: GCA_905171775.1 aRanTem1: GCA_905171725.1
UCSC Genome Browser aRanTem1: GCA_905171775.1 aRanTem1: GCA_905171725.1

metadata.yaml (view) (edit on github)
species:
  short_name: aRanTem
  name: Rana temporaria
  taxon_id: 8407
  common_name: common frog
  order:
    name: Anura
  family:
    name: Ranidae
  individuals:
    - short_name: aRanTem1
      biosample_id: SAMEA7521635
      sex: female
  genome_size:
  genome_size_method:
  project: [ vgp ]
CC BY-NC 2.0 abejorro34 (flickr)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR aRanTem1 319.99 Gbp 77.83x 579.5 GiB
10x aRanTem1 404.57 Gbp 98.40x 251.0 GiB
Bionano aRanTem1 N/A 380.78x 2.2 GiB
Dovetail Genomics aRanTem1 338.15 Gbp 82.25x 222.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size 4.11 Gbp.
Last upload on 8 January 2020.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
aRanTem1 PacBio CLR 319.99 Gbp 77.83x 579.5 GiB
10x 404.57 Gbp 98.40x 251.0 GiB
Bionano N/A 380.78x 2.2 GiB
Dovetail Genomics 338.15 Gbp 82.25x 222.7 GiB
Bases and Coverage are approximate.
Coverage based on genome size 4.11 Gbp.
Last upload on 8 January 2020.
Assemblies
Individual 1 Primary Assembly
Version assembly_curated from 24 April 2020
aRanTem1.pri.cur.20200424.fasta.gz (1.1 GiB)

Quality: 49.0 errors/Mb (QV=43.10)

Contigs Scaffolds
NG LG Len LG Len
10 19 15.72 Mbp 0 0.69 Gbp
20 49 11.71 Mbp 1 0.54 Gbp
30 88 9.46 Mbp 2 495.42 Mbp
40 136 7.56 Mbp 2 495.42 Mbp
50 196 6.26 Mbp 3 481.76 Mbp
60 273 4.43 Mbp 4 429.35 Mbp
70 380 3.28 Mbp 6 212.59 Mbp
80 534 2.15 Mbp 8 184.30 Mbp
90 791 1.14 Mbp 10 153.78 Mbp
100 2413 100 bp 553 563 bp
1.000x 2414 4.09 Gbp 554 4.11 Gbp
NG based on genome size 4.11 Gbp.
Individual 1 Alternate Assembly
Version assembly_curated from 24 April 2020
aRanTem1.alt.cur.20200424.fasta.gz (1.0 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 184 1.52 Mbp 184 1.52 Mbp
20 475 1.09 Mbp 475 1.09 Mbp
30 863 0.85 Mbp 863 0.85 Mbp
40 1350 0.68 Mbp 1350 0.68 Mbp
50 1960 0.55 Mbp 1959 0.55 Mbp
60 2702 449.05 Kbp 2701 449.20 Kbp
70 3625 354.34 Kbp 3624 354.72 Kbp
80 4851 249.97 Kbp 4849 250.04 Kbp
90 6815 138.42 Kbp 6811 138.50 Kbp
100 12033 287 bp 12019 287 bp
1.000x 12034 3.69 Gbp 12020 3.69 Gbp
NG based on genome size 4.11 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 3 October 2019
aRanTem1.MT.20191003.fasta.gz (5.9 KiB)

Quality: not computed
Data Use Policy

Samples and data come from a variety of sources. To support fair and productive use of this data, please abide by the Data Use Policy and contact Erich D. Jarvis, ejarvis@rockefeller.edu, with any questions.