{ "type": "genome", "identifier": "GCF_014197105.1", "organism": "Sphingomonas jinjuensis", "title": "Sphingomonas jinjuensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014197105.1", "bioproject": "PRJNA224116", "biosample": "SAMN13172823", "wgs_master": "JACIEV000000000.1", "refseq_category": "reference genome", "taxid": "535907", "species_taxid": "535907", "organism_name": "Sphingomonas jinjuensis", "infraspecific_name": "strain=YC6723", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1419710v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014197105.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/197/105/GCF_014197105.1_ASM1419710v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3855215", "genome_size_ungapped": "3855026", "gc_percent": "67.500000", "replicon_count": "0", "scaffold_count": "33", "contig_count": "33", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014197105.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3672", "protein_coding_gene_count": "3595", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-14", "dateModified": "2020-08-14", "datePublished": "2020-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingomonas jinjuensis" ], "sample_taxid": [ "535907" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea:Jinju" ], "sample_host_location_id": [], "data_size": "1.047 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3855215", "Number of Sequences": "33", "Longest Sequences (bp)": "662754", "N50 (bp)": "406858", "Gap Ratio (%)": "0.004902", "GCcontent (%)": "67.7", "Number of CDSs": "3626", "Average Protein Length": "323.5", "Coding Ratio (%)": "91.3", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphingomonas jinjuensis", "strain": "strain=YC6723", "accession": "GCA_014197105.1", "taxid": 535907, "species_taxid": 535907, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1270, 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"below_threshold" }, { "organism_name": "Sphingomonas aquatilis", "strain": "strain=DSM 15581", "accession": "GCA_014196115.1", "taxid": 93063, "species_taxid": 93063, "relation_to_type": "type", "validated": true, "ani": 81.4972, "matched_fragments": 689, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas melonis", "strain": "strain=DAPP-PG 224", "accession": "GCA_000379045.1", "taxid": 152682, "species_taxid": 152682, "relation_to_type": "type", "validated": true, "ani": 81.434, "matched_fragments": 696, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas insulae", "strain": "strain=KCTC 12872", "accession": "GCA_010450875.1", "taxid": 424800, "species_taxid": 424800, "relation_to_type": "type", "validated": true, "ani": 81.3648, "matched_fragments": 672, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas 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"accession": "GCA_002374835.1", "taxid": 862134, "species_taxid": 862134, "relation_to_type": "type", "validated": true, "ani": 80.7556, "matched_fragments": 644, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas endophytica", "strain": "strain=DSM 101535", "accession": "GCA_014199415.1", "taxid": 869719, "species_taxid": 869719, "relation_to_type": "type", "validated": true, "ani": 80.7541, "matched_fragments": 619, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas folli", "strain": "strain=RHCKR7", "accession": "GCA_019429525.1", "taxid": 2862497, "species_taxid": 2862497, "relation_to_type": "type", "validated": true, "ani": 80.7484, "matched_fragments": 679, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas citri", "strain": "strain=RRHST34", "accession": "GCA_019429485.1", "taxid": 2862499, "species_taxid": 2862499, "relation_to_type": "type", "validated": true, "ani": 80.6842, "matched_fragments": 668, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas yunnanensis", "strain": "strain=YIM 3", "accession": "GCA_019898765.1", "taxid": 310400, "species_taxid": 310400, "relation_to_type": "type", "validated": true, "ani": 80.508, "matched_fragments": 657, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas corticis", "strain": "strain=36D10-4-7", "accession": "GCA_012035195.1", "taxid": 2722791, "species_taxid": 2722791, "relation_to_type": "type", "validated": true, "ani": 80.5054, "matched_fragments": 650, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas phyllosphaerae", "strain": "strain=FA2", "accession": "GCA_000427645.1", "taxid": 257003, "species_taxid": 257003, "relation_to_type": "type", "validated": true, "ani": 80.4812, "matched_fragments": 627, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas pseudosanguinis", "strain": "strain=DSM 19512", "accession": "GCA_014196255.1", "taxid": 413712, "species_taxid": 413712, "relation_to_type": "type", "validated": true, "ani": 80.4792, "matched_fragments": 649, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas gellani", "strain": "strain=S6-262", "accession": "GCA_900110035.1", "taxid": 1166340, "species_taxid": 1166340, "relation_to_type": "type", "validated": true, "ani": 80.226, "matched_fragments": 547, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas aracearum", "strain": "strain=WZY 27", "accession": "GCA_003345355.1", "taxid": 2283317, "species_taxid": 2283317, "relation_to_type": "type", "validated": true, "ani": 79.9615, 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