sequence_feature Data

Attributes

• aa_sequence_md5 (string) - 32-char digest used to de-duplicate identical variant peptides and join across genomes without moving the full sequence. 0cc175b9c0f1b6a831c399e269772661
• aa_variant (string) - Protein-level variant call in “p.X123Y” syntax; blank for nucleotide-only features. p.D614G
• additional_metadata (array of case insensitive strings) - Arbitrary key–value notes not covered by fixed fields (e.g. “frequency: 42 %”). [ "allele_freq: 0.42" ]
• comments (array of case insensitive strings) - Remarks such as “low depth”, “ambiguous region”, stored one per array element. [ "flanks masked by Ns" ]
• date_inserted (date) - ISO-8601 UTC datetime when the row entered BV-BRC. 2023-05-11T14:29:07Z
• date_modified (date) - Updated whenever any attribute changes; drives incremental exports. 2025-04-22T08:15:11Z
• end (integer) - 1-based inclusive genomic position where the sequence feature ends. 23403
• evidence_code (string) - Controlled terms (e.g. high confidence, low_depth, inferred); supports QC filters. high_confidence
• feature_id (string) - `fig …` identifier of the CDS or RNA where the variant lies.
• genbank_accession (string) - Accession for strand-aware coordinate mapping. NC_045512.2
• gene (string) - Short locus tag or gene name (S, N, orf1ab). S
• genome_id (string) - Foreign key to the genome row. 336082.4
• genome_name (case insensitive string) - Scientific name + strain for fast tables. Severe acute respiratory syndrome coronavirus 2 isolate USA/IL-Shokla-02
• id * (string) - Unique composite key (genome_id│sf_id│start) guaranteeing row uniqueness. 336082.4│SF001234│23363
• length (integer) - Number of nucleotides (or amino acids for peptide features). 9
• patric_id (string) - Historical duplicate for older APIs. `fig
• product (case insensitive string) - Functional description of the parent gene. Spike glycoprotein
• publication (array of strings) - PubMed IDs / DOIs evidencing the variant. [ "PMC7891234" ]
• refseq_locus_tag (string) - NCBI locus tag for cross-reference. YP_009724390.1
• segment (string) - Label for segmented viruses (PB2, HA …); blank for non-segmented. S
• segments (array of strings) - For discontinuous SFs: list of “start..end” strings. [ "23363..23403" ]
• sf_category (string) - SNP, insertion, deletion, peptide_motif, etc. SNP
• sf_id (string) - Stable identifier for the variant/motif definition (e.g. WHO VOC mutation catalog ID). SF_HCoV2_D614G
• sf_name (case insensitive string) - Short descriptive tag such as “D614G” or “furin-cleavage-site insertion”. D614G
• sf_sequence (string) - Literal NT/AA string present in the genome at this locus. GGT
• sf_sequence_md5 (string) - Digest allows deduplication across genomes. 4a7d1ed414474e4033ac29ccb8653d9b
• source (string) - Nextclade, GISAID, PANGOLIN, User, etc. Nextclade
• source_aa_sequence (string) - Surrounding AA sequence used by caller; handy for epitope mapping. …QTQTNSPRRARSVASQS…
• source_id (string) - Variant ID in original repository. NC_045512:D614G
• source_sf_location (string) - Original coordinate string from input VCF/GFF (kept for traceability). 23363-23403
• source_strain (string) - Original strain name if it differs from genome_name. USA/IL-Shokla-02
• start (integer) - 1-based inclusive genomic position where the sequence feature starts. 23363
• subtype (string) - H5N1, H1N1, etc., if provided by caller. H5N1
• taxon_id (integer) - Taxon of the parent genome; enables taxon-filtered variant queries. 2697049
• variant_types (string) - Single-letter codes or comma-sep list (e.g. missense_variant, frameshift_variant). missense_variant

API

https://www.bv-brc.org/api/sequence_feature/:ID