Hemiscyllium ocellatum

epaulette shark

Included in the VGP.

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


Resource Maternal Assembly Paternal Assembly
GenBank sHemOce1: GCA_020745765.1
ENA sHemOce1: GCA_020745765.1
UCSC Genome Browser sHemOce1: GCA_020745765.1

metadata.yaml (view) (edit on github)
species:
  common_name: epaulette shark
  family:
    name: Hemiscylliidae
  genome_size: 5500000000
  genome_size_method: null
  individuals:
  - short_name: sHemOce1
  name: Hemiscyllium ocellatum
  order:
    name: Orectolobiformes
  short_name: sHemOce
  taxon_id: 170820
  project: [ vgp ]
CC BY-NC-SA 4.0 Coughdrop12 (Wikimedia)
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio CLR sHemOce1 821.27 Gbp 149.32x 1.4 TiB
10x sHemOce1 357.24 Gbp 64.95x 182.9 GiB
Bionano sHemOce1 N/A 79.57x 801.5 MiB
Arima sHemOce1 431.09 Gbp 78.38x 239.5 GiB
Illumina sHemOce2 523.13 Gbp 95.12x 253.6 GiB
sHemOce3 629.32 Gbp 114.42x 305.4 GiB
Bases and Coverage are approximate.
Coverage based on genome size 5.50 Gbp.
Last upload on 14 July 2020.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
sHemOce1 PacBio CLR 821.27 Gbp 149.32x 1.4 TiB
10x 357.24 Gbp 64.95x 182.9 GiB
Bionano N/A 79.57x 801.5 MiB
Arima 431.09 Gbp 78.38x 239.5 GiB
sHemOce2 Illumina 523.13 Gbp 95.12x 253.6 GiB
sHemOce3 Illumina 629.32 Gbp 114.42x 305.4 GiB
Bases and Coverage are approximate.
Coverage based on genome size 5.50 Gbp.
Last upload on 14 July 2020.
Assemblies
Individual 1 Merged Trio Assembly
Version assembly_curated from 28 May 2021
sHemOce1.pat.X.cur.20210528.fasta.gz (1.1 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 13 31.72 Mbp 3 144.05 Mbp
20 34 22.77 Mbp 7 120.50 Mbp
30 65 13.47 Mbp 12 99.69 Mbp
40 126 6.45 Mbp 19 69.72 Mbp
50 257 2.83 Mbp 28 55.86 Mbp
60 734 0.50 Mbp 40 34.46 Mbp
70 4148 71.17 Kbp 374 361.69 Kbp
80 0 0
90 0 0
100 0 0
0.710x 5678 3.91 Gbp 1962 3.98 Gbp
NG based on genome size 5.50 Gbp.
Individual 1 Maternal Assembly
Version assembly_curated from 28 May 2021
sHemOce1.mat.decon.20210528.fasta.gz (1.1 GiB)

Quality: 30.5 errors/Mb (QV=45.16)

Contigs Scaffolds
NG LG Len LG Len
10 11 34.32 Mbp 3 127.15 Mbp
20 32 22.10 Mbp 9 90.81 Mbp
30 66 12.24 Mbp 15 73.77 Mbp
40 129 6.52 Mbp 24 55.28 Mbp
50 256 2.77 Mbp 36 38.00 Mbp
60 721 494.08 Kbp 77 4.53 Mbp
70 3854 96.09 Kbp 597 348.31 Kbp
80 0 0
90 0 0
100 0 0
0.739x 7552 4.07 Gbp 4000 4.15 Gbp
NG based on genome size 5.50 Gbp.
Individual 1 Paternal Assembly
Version assembly_curated from 28 May 2021
sHemOce1.pat.decon.20210528.fasta.gz (1.1 GiB)

Quality: 18.5 errors/Mb (QV=47.32)

Contigs Scaffolds
NG LG Len LG Len
10 13 31.72 Mbp 4 119.15 Mbp
20 34 22.78 Mbp 9 91.22 Mbp
30 65 13.47 Mbp 15 79.50 Mbp
40 126 6.45 Mbp 24 55.28 Mbp
50 258 2.73 Mbp 35 41.06 Mbp
60 754 478.12 Kbp 71 5.53 Mbp
70 3929 96.88 Kbp 570 374.41 Kbp
80 0 0
90 0 0
100 0 0
0.741x 7881 4.08 Gbp 4299 4.17 Gbp
NG based on genome size 5.50 Gbp.
Individual 1 Mitochondrial Assembly
Version assembly_rockefeller_trio_1.6 from 4 March 2021
sHemOce1.MT.20210304.fasta.gz (5.0 KiB)

Quality: not computed
Assembly Metadata
sHemOce1_metadata.yml (view)
samples:
- biomaterial_provider: ARMI Monash University
  bioproject_accession: PRJNA516733
  birth_date: ''
  birth_location: ''
  breed: ''
  collected_by: Frank Tulenko
  collection_date: 02/01/2019
  common_name: epaulette shark
  description: Tissue samples from laboratory-raised pre-hatchling Epaulette shark.
    Frozen tissue was dissected on dry ice on 5-Sept-2019 at VGL.
  dev_stage: juvenile
  geo_loc_name: 'Australia '
  isolate: sHemOce1
  lat_lon: -37.915047 S, 145.129272 E
  organism: Hemiscyllium ocellatum
  sex: male
  specimen_voucher: '1654'
  store_cond: -80C
  taxon_Id: '170820'
  tissue: Spleen
  treatment: Frozen
  tube_id: sHemOce1
- biomaterial_provider: ARMI Monash University
  bioproject_accession: PRJNA516733
  birth_date: ''
  birth_location: ''
  breed: ''
  collected_by: 'Frank Tulenko '
  collection_date: 02/01/2019
  common_name: epaulette shark
  description: Tissue samples from laboratory-raised pre-hatchling Epaulette sharks.
    Frozen tissue was dissected on dry ice on 5-Sept-2019 at VGL.
  dev_stage: juvenile
  geo_loc_name: Australia
  isolate: sHemOce1
  lat_lon: -37.915047 S, 145.129272 E
  organism: Hemiscyllium ocellatum
  sex: male
  specimen_voucher: ''
  store_cond: -80C
  taxon_Id: '170820'
  tissue: Heart
  treatment: Frozen
  tube_id: sHemOce1
- biomaterial_provider: ARMI Monash University
  bioproject_accession: PRJNA516733
  birth_date: ''
  birth_location: ''
  breed: ''
  collected_by: Frank Tulenko
  collection_date: 02/01/2019
  common_name: epaulette shark
  description: Tissue samples from laboratory-raised pre-hatchling Epaulette sharks.
    Frozen tissue was dissected on dry ice on 5-Sept-2019 at VGL.
  dev_stage: juvenile
  geo_loc_name: Australia
  isolate: sHemOce1
  lat_lon: -37.915047 S, 145.129272 E
  organism: Hemiscyllium ocellatum
  sex: male
  specimen_voucher: ''
  store_cond: -80C
  taxon_Id: '170820'
  tissue: Muscle
  treatment: Frozen
  tube_id: sHemOce1
sHemOce2_metadata.yml (view)
samples:
- biomaterial_provider: ARMI Monash University
  bioproject_accession: PRJNA516733
  birth_date: ''
  birth_location: ''
  breed: ''
  collected_by: Frank Tulenko
  collection_date: 02/13/2019
  common_name: epaulette shark
  description: Blood samples were collected from wild caught, laboratory reared adult;
    Mother of sHemOce1
  dev_stage: adult
  geo_loc_name: 'Australia '
  isolate: sHemOce2
  lat_lon: -37.915047 S, 145.129272 E
  organism: Hemiscyllium ocellatum
  sex: female
  specimen_voucher: ''
  store_cond: -80C
  taxon_Id: '170820'
  tissue: Whole blood
  treatment: EDTA collection tube; Flash Frozen
  tube_id: sHemOce2
sHemOce3_metadata.yml (view)
samples:
- biomaterial_provider: ARMI Monash University
  bioproject_accession: PRJNA516733
  birth_date: ''
  birth_location: ''
  breed: ''
  collected_by: Frank Tulenko
  collection_date: 02/13/2019
  common_name: epaulette shark
  description: Blood samples were collected from wild-caught, laboratory-reared adult.
    Father of sHemOce1.
  dev_stage: adult
  geo_loc_name: 'Australia '
  isolate: sHemOce3
  lat_lon: -37.915047 S, 145.129272 E
  organism: Hemiscyllium ocellatum
  sex: male
  specimen_voucher: ''
  store_cond: -80C
  taxon_Id: '170820'
  tissue: Whole blood
  treatment: EDTA collection tube; Flash Frozen
  tube_id: sHemOce3
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.