snapshot_type: uniprot_record_evidence_extract archive: repository: https://github.com/ai4curation/uniprot-orphan-analysis commit: f6a331cb47f61256ad070bbaa75567094ef64e8a extraction: Original source line ranges with two context lines; not complete records. Structured fields are selected from the same archived snapshots. Sequence values are replaced by lengths and SHA-256 digests. sources: - url: https://rest.uniprot.org/uniprotkb/F7J0M4.json retrieved_at: '2026-10-18T23:38:56.253174+00:00' uniprot_release: '2026_03' - url: https://rest.uniprot.org/uniprotkb/F7J0M6.json retrieved_at: '2026-10-18T23:38:56.417350+00:00' uniprot_release: '2026_03' - url: https://rest.uniprot.org/proteomes/UP000059680.json retrieved_at: '2026-10-18T23:38:56.578089+00:00' uniprot_release: '2026_03' - url: https://rest.uniprot.org/unisave/F7J0M4?format=txt&versions=17 retrieved_at: '2026-10-18T23:39:00.435303+00:00' uniprot_release: '2026_03' - url: https://rest.uniprot.org/unisave/F7J0M4?format=txt&versions=38 retrieved_at: '2026-10-18T23:39:01.143621+00:00' uniprot_release: '2026_03' - url: https://rest.uniprot.org/unisave/F7J0M4?format=txt&versions=48 retrieved_at: '2026-10-18T23:39:02.446326+00:00' uniprot_release: '2026_03' observations: primary_accession: F7J0M4 alternative_accession: F7J0M6 sequence_identical: false primary_sequence_length: 996 alternative_sequence_length: 1014 shared_uniparc_id: null same_taxon: true reference_proteome: UP000059680 proteome_is_reference: true proteome_taxon_matches: true primary_in_reference_proteome: false alternative_in_reference_proteome: true searched_reference_proteomes: - UP000059680 primary_in_any_reference_proteome: false sampled_history_versions: - 17 - 38 - 48 sampled_versions_with_proteome_links: [] current_records: - primaryAccession: F7J0M4 entryType: UniProtKB reviewed (Swiss-Prot) entryAudit: firstPublicDate: '2018-07-18' lastAnnotationUpdateDate: '2026-09-02' lastSequenceUpdateDate: '2011-09-21' entryVersion: 53 sequenceVersion: 1 genes: - geneName: evidences: - evidenceCode: ECO:0000303 source: PubMed id: '21251109' value: RGA4 synonyms: - evidences: - evidenceCode: ECO:0000303 source: PubMed id: '21251109' value: PIA organism: scientificName: Oryza sativa subsp. japonica taxonId: 39947 sequence: length: 996 sha256: 7208c821f7e4518dbb9216779120a9efc2bda360cece05692dd79c65fb952379 uniProtKBCrossReferences: [] - primaryAccession: F7J0M6 entryType: UniProtKB reviewed (Swiss-Prot) entryAudit: firstPublicDate: '2018-07-18' lastAnnotationUpdateDate: '2026-09-02' lastSequenceUpdateDate: '2011-09-21' entryVersion: 66 sequenceVersion: 1 genes: - geneName: evidences: - evidenceCode: ECO:0000303 source: PubMed id: '21251109' value: RGA4 orderedLocusNames: - evidences: - evidenceCode: ECO:0000312 source: EMBL id: BAT13283.1 value: Os11g0225100 - evidences: - evidenceCode: ECO:0000312 source: EMBL id: ABA92206.2 value: LOC_Os11g11790 organism: scientificName: Oryza sativa subsp. japonica taxonId: 39947 sequence: length: 1014 sha256: aa3fb4d0e26115c21c3da7b0f042a7ba973313f24b43bd4b148ec8bff29da94c uniProtKBCrossReferences: - database: Gramene id: Os11t0225100-01 properties: - key: ProteinId value: Os11t0225100-01 - key: GeneId value: Os11g0225100 - database: Proteomes id: UP000059680 properties: - key: Component value: Chromosome 11 reference_proteomes: - id: UP000059680 proteomeType: Reference proteome taxonomy: scientificName: Oryza sativa subsp. japonica commonName: Rice taxonId: 39947 mnemonic: ORYSJ unisave_records: - entry_version: 17 url: https://rest.uniprot.org/unisave/F7J0M4?format=txt&versions=17 entry_date: 09-DEC-2015, entry version 17. proteomes: [] reference_proteome_keyword: false record_text: '' - entry_version: 38 url: https://rest.uniprot.org/unisave/F7J0M4?format=txt&versions=38 entry_date: 12-AUG-2020, entry version 38. proteomes: [] reference_proteome_keyword: false record_text: '' - entry_version: 48 url: https://rest.uniprot.org/unisave/F7J0M4?format=txt&versions=48 entry_date: 27-NOV-2024, entry version 48. proteomes: [] reference_proteome_keyword: false record_text: '' archived_sources: - path: genes/ORYSJ/RGA4/RGA4-record-evidence.yaml url: https://github.com/ai4curation/uniprot-orphan-analysis/blob/f6a331cb47f61256ad070bbaa75567094ef64e8a/genes/ORYSJ/RGA4/RGA4-record-evidence.yaml sha256: 016729cc5fc734c209d12f1a5f2fcb0107d7b123500e593320981f421118ec4c excerpts: - start_line: 26 end_line: 38 text: |2 alternative_sequence_length: 1014 shared_uniparc_id: null same_taxon: true reference_proteome: UP000059680 proteome_is_reference: true proteome_taxon_matches: true primary_in_reference_proteome: false alternative_in_reference_proteome: true searched_reference_proteomes: - UP000059680 primary_in_any_reference_proteome: false sampled_history_versions: - 17 - start_line: 946 end_line: 955 text: |2 source: EMBL id: BAT13283.1 value: Os11g0225100 - evidences: - evidenceCode: ECO:0000312 source: EMBL id: ABA92206.2 value: LOC_Os11g11790 comments: - texts: - start_line: 961 end_line: 965 text: |2 an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. At the opposite of cultivars Aichi asahi and Sasanishiki, the cultivars Nipponbare, Mokoto and Hitomebore don't recognize the effector avirulence protein AVR-Pia from M.oryzae commentType: FUNCTION - start_line: 1456 end_line: 1460 text: |2 value: Os11t0225100-01 - key: GeneId value: Os11g0225100 - database: Gramene id: Os11t0225100-01 - start_line: 1463 end_line: 1467 text: |2 value: Os11t0225100-01 - key: GeneId value: Os11g0225100 - database: KEGG id: dosa:Os11g0225100 - start_line: 2100 end_line: 2105 text: | - entry_version: 17 url: https://rest.uniprot.org/unisave/F7J0M4?format=txt&versions=17 entry_date: 09-DEC-2015, entry version 17. proteomes: [] reference_proteome_keyword: false record_text: | - start_line: 2171 end_line: 2176 text: | - entry_version: 38 url: https://rest.uniprot.org/unisave/F7J0M4?format=txt&versions=38 entry_date: 12-AUG-2020, entry version 38. proteomes: [] reference_proteome_keyword: false record_text: | - start_line: 2361 end_line: 2366 text: | - entry_version: 48 url: https://rest.uniprot.org/unisave/F7J0M4?format=txt&versions=48 entry_date: 27-NOV-2024, entry version 48. proteomes: [] reference_proteome_keyword: false record_text: | - path: genes/ORYSJ/RGA4/RGA4-bioinformatics/reference-counterparts/comparison.yaml url: https://github.com/ai4curation/uniprot-orphan-analysis/blob/f6a331cb47f61256ad070bbaa75567094ef64e8a/genes/ORYSJ/RGA4/RGA4-bioinformatics/reference-counterparts/comparison.yaml sha256: 4d0c0223cbcbc12c85c82491ebb2bbef6af3b82537dc2369131da6cc8d492d26 excerpts: - start_line: 25 end_line: 29 text: |2 - -v - '1' target_sequence_count: 48896 query_sha256: f438f46d720abbe6f1b5b803e2ec2d4020199c216894a25ffffdaa192a22566a targets_sha256: b38f535a59131e6ea44278e4d553bf418972dbcbda74cb374e7445844dc51963 - start_line: 44 end_line: 48 text: |2 sha256: b38f535a59131e6ea44278e4d553bf418972dbcbda74cb374e7445844dc51963 detailed_alignment_limit: 10 candidate_count: 358 candidates: - accession: F7J0M6 - start_line: 52 end_line: 64 text: |2 bit_score: 1879.0 global_score: 4845.0 query_length: 996 target_length: 1014 alignment_columns: 1017 identities: 951 mismatches: 42 gap_columns: 24 identity_percent: 93.5103 query_coverage_percent: 99.6988 target_coverage_percent: 97.929 substitutions: - query_position: 22 comparison: provenance: query_accession: F7J0M4 run_at: '2026-10-18T23:33:39.433600+00:00' biopython_version: '1.85' mmseqs_version: 18-8cc5c command: - mmseqs - easy-search - genes/ORYSJ/RGA4/RGA4-bioinformatics/reference-counterparts/query.fasta - .cache/orphan-curated/UP000059680.fasta - genes/ORYSJ/RGA4/RGA4-bioinformatics/reference-counterparts/search.tsv - genes/ORYSJ/RGA4/RGA4-bioinformatics/reference-counterparts/tmp - --threads - '4' - -s - '7.5' - -e - 1e-5 - --max-seqs - '1000' - --format-output - query,target,pident,alnlen,qstart,qend,qlen,tstart,tend,tlen,evalue,bits - --remove-tmp-files - '1' - -v - '1' target_sequence_count: 48896 query_sha256: f438f46d720abbe6f1b5b803e2ec2d4020199c216894a25ffffdaa192a22566a targets_sha256: b38f535a59131e6ea44278e4d553bf418972dbcbda74cb374e7445844dc51963 global_alignment: mode: global matrix: BLOSUM62 open_gap: -10 extend_gap: -0.5 terminal_gaps_penalized: true identity_denominator: All global alignment columns, including gaps coverage_denominator: Full query/target length; numerator is paired nongap residues limitation: MMseqs2 heuristic search; no guarantee of exhaustive retrieval or locus equivalence target_source: url: https://rest.uniprot.org/uniprotkb/stream?query=proteome%3AUP000059680&format=fasta retrieved_at: '2026-10-18T23:32:29.836656+00:00' uniprot_release: '2026_03' sequence_count: 48896 sha256: b38f535a59131e6ea44278e4d553bf418972dbcbda74cb374e7445844dc51963 detailed_alignment_limit: 10 candidate_count: 358 retained_alignment_count: 10 candidates: - accession: F7J0M6 description: sp|F7J0M6|RGA4S_ORYSJ Disease resistance protein RGA4 OS=Oryza sativa subsp. japonica OX=39947 GN=RGA4 PE=2 SV=1 evalue: 0.0 bit_score: 1879.0 global_score: 4845.0 query_length: 996 target_length: 1014 alignment_columns: 1017 identities: 951 mismatches: 42 gap_columns: 24 identity_percent: 93.5103 query_coverage_percent: 99.6988 target_coverage_percent: 97.929 - accession: A0A0P0Y1V1 description: tr|A0A0P0Y1V1|A0A0P0Y1V1_ORYSJ Os11g0462500 protein OS=Oryza sativa subsp. japonica OX=39947 GN=Os11g0462500 PE=3 SV=1 evalue: 9.586e-219 bit_score: 704.0 global_score: 1851.5 query_length: 996 target_length: 989 alignment_columns: 1030 identities: 434 mismatches: 521 gap_columns: 75 identity_percent: 42.1359 query_coverage_percent: 95.8835 target_coverage_percent: 96.5622