JSON

OMG Exon Capture Raw 102.100.100/364447 BHYCGCDRXX ATACTGA

Sminthopsis virginiae, AM M.37811.001 Australia Northern Territory

Data and Resources

Additional Info

Field Value
Geospatial Coverage

Dataset extent

Map tiles & Data by OpenStreetMap, under CC BY SA.
Resource Permissions organization_member
Sequence Data Type
access_rights
ala_species_name
ala_specimen_url
ancillary_notes Original notes: The animal has large testes. Other notes: The registration sheet was stored in the register, but it has not been entered in EMu until 08/02/2018.
archive_ingestion_date 2021-03-03
associated_media
barcode_id
base_url https://downloads-qcif.bioplatforms.com/bpa/omg_staging/exon_capture/brf/BPAOPS-1032/
birth_date
bpa_dataset_id 102.100.100/52647
bpa_library_id 102.100.100/364447
bpa_sample_id 102.100.100/362276
bpa_work_order 40074
class Mammalia
collection_date 1981
collection_method unknown
collector UNSW
collector_sample_id
common_name Red-cheeked dunnart
contextual_data_submission_date
coord_uncertainty_metres
country Australia
custodian Mark Eldridge
data_custodian Mark Eldridge
data_generated 2021-03-03
data_type Illumina FASTQ
dataset_url
date_of_transfer 2021-02-11
ddrad_data no
ddrad_dataset_ids NA
death_date
description Novaseq 6000 A00548_0147_LBroady_52647_Marsupial_gDNA
dna_conc_ng_ul 4.82
dna_extracted_by Liz Broady
dna_extraction_date 2020-09-24
dna_extraction_method salting out
dna_treatment 7 biorupter cycles
exon_capture_data yes
exon_capture_dataset_ids 52647.0
experimental_design Nimblegen Exon Capture, marsupial probes V2, dual indexed
facility brf
facility_sample_id 364447_BHYCGCDRXX_ATACTGA
family Dasyuridae
file
flowcell_id BHYCGCDRXX
folder_name A00548_0147_LBroady_52647_Marsupial_gDNA
genome_data no
genome_dataset_ids NA
genus Sminthopsis
habitat
identified_by unknown
institution_name Australian Museum
latitude -12.216667
library_comments qPCR results indicate that the target capture and enrichment was successful
library_location EBL main freezer
library_ng_ul 7.6
library_pcr_cycles 12.0
library_pcr_reps 2.0
library_prep_date 2021-01-11
library_prep_method Meyer and Kircher protocol
library_prepared_by Liz Broady
library_status Ready for sequencing
library_type Exon Capture
life_stage Adult
location_generalisation
location_text Tomkinson River
longitude 134.266667
n_libraries_pooled 288
omg_project Marsupial phylogenetics
order Dasyuromorphia
p5_library_index_id P5_indexing16
p5_library_index_sequence TAATGCG
p5_library_oligo_sequence AATGATACGGCGACCACCGAGATCTACACcgcattaACACTCTTTCCCTACACGACGCTCTT
p7_library_index_id P7_indexing59
p7_library_index_sequence ATACTGA
p7_library_oligo_sequence CAAGCAGAAGACGGCATACGAGATtcagtatGTGACTGGAGTTCAGACGTGT
phylum Chordata
prior_genetics
sample_quality unknown
sample_submission_date 2021-02-11
sequence_length 100bp PE
sequencing_facility BRF
sequencing_platform Illumina NovaSeq SP 200 cycle
sex Male
software_version unknown
source_population
species virginiae
species_name Sminthopsis virginiae
state_or_region Northern Territory
subspecies_or_variant nitela
taxon_id 90771
taxonomic_group marsupial
ticket BPAOPS-1032
tissue_collection Mammalogy
tissue_number EBU 47952
tissue_preservation unknown
tissue_type liver
trace_lab no
type_status
voucher_id
voucher_number AM M.37811.001
voucher_or_tissue_number AM M.37811.001
wild_captive unknown