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/P45730.json retrieved_at: '2026-10-18T23:26:04.343774+00:00' uniprot_release: '2026_03' - url: https://rest.uniprot.org/uniprotkb/A0A2K1XD28.json retrieved_at: '2026-10-18T23:26:05.092964+00:00' uniprot_release: '2026_03' - url: https://rest.uniprot.org/proteomes/UP000006729.json retrieved_at: '2026-10-18T23:26:06.018651+00:00' uniprot_release: '2026_03' - url: https://rest.uniprot.org/unisave/P45730?format=txt&versions=97 retrieved_at: '2026-10-18T23:26:09.423750+00:00' uniprot_release: '2026_03' - url: https://rest.uniprot.org/unisave/P45730?format=txt&versions=113 retrieved_at: '2026-10-18T23:26:11.820205+00:00' uniprot_release: '2026_03' - url: https://rest.uniprot.org/unisave/P45730?format=txt&versions=124 retrieved_at: '2026-10-18T23:26:14.221521+00:00' uniprot_release: '2026_03' - url: https://www.ebi.ac.uk/ena/browser/api/embl/L11747 retrieved_at: '2026-10-18T23:26:14.891592+00:00' uniprot_release: null observations: primary_accession: P45730 alternative_accession: A0A2K1XD28 sequence_identical: false primary_sequence_length: 715 alternative_sequence_length: 715 shared_uniparc_id: null same_taxon: true reference_proteome: UP000006729 proteome_is_reference: true proteome_taxon_matches: true primary_in_reference_proteome: false alternative_in_reference_proteome: true sampled_history_versions: - 97 - 113 - 124 sampled_versions_with_proteome_links: [] current_records: - primaryAccession: P45730 entryType: UniProtKB reviewed (Swiss-Prot) entryAudit: firstPublicDate: '1995-11-01' lastAnnotationUpdateDate: '2026-09-02' lastSequenceUpdateDate: '1995-11-01' entryVersion: 129 sequenceVersion: 1 genes: - geneName: value: PAL organism: scientificName: Populus trichocarpa taxonId: 3694 sequence: length: 715 sha256: f14ab210c3bd4251ce40eeed8222aa41294f96deae85ae2749110a1f4d687768 uniProtKBCrossReferences: [] - primaryAccession: A0A2K1XD28 entryType: UniProtKB unreviewed (TrEMBL) entryAudit: firstPublicDate: '2026-06-10' lastAnnotationUpdateDate: '2026-09-02' lastSequenceUpdateDate: '2026-06-10' entryVersion: 2 sequenceVersion: 1 genes: - orfNames: - evidences: - evidenceCode: ECO:0000313 source: EMBL id: PNS98685.1 value: POPTR_016G091100 organism: scientificName: Populus trichocarpa taxonId: 3694 sequence: length: 715 sha256: 402de82d117b2295ba921aa76d1ea1b169918806c8062aeb012af62ded057995 uniProtKBCrossReferences: - database: Gramene id: Potri.016G091100.1.v4.1 properties: - key: ProteinId value: Potri.016G091100.1.v4.1 - key: GeneId value: Potri.016G091100.v4.1 - database: Proteomes id: UP000006729 properties: - key: Component value: Chromosome 16 reference_proteomes: - id: UP000006729 proteomeType: Reference proteome taxonomy: scientificName: Populus trichocarpa commonName: Western balsam poplar synonyms: - Populus balsamifera subsp. trichocarpa taxonId: 3694 mnemonic: POPTR unisave_records: - entry_version: 97 url: https://rest.uniprot.org/unisave/P45730?format=txt&versions=97 entry_date: 11-NOV-2015, entry version 97. proteomes: [] reference_proteome_keyword: false record_text: '' - entry_version: 113 url: https://rest.uniprot.org/unisave/P45730?format=txt&versions=113 entry_date: 07-OCT-2020, entry version 113. proteomes: [] reference_proteome_keyword: false record_text: '' - entry_version: 124 url: https://rest.uniprot.org/unisave/P45730?format=txt&versions=124 entry_date: 27-NOV-2024, entry version 124. proteomes: [] reference_proteome_keyword: false record_text: '' archived_sources: - path: genes/POPTR/PAL/PAL-record-evidence.yaml url: https://github.com/ai4curation/uniprot-orphan-analysis/blob/f6a331cb47f61256ad070bbaa75567094ef64e8a/genes/POPTR/PAL/PAL-record-evidence.yaml sha256: c356b38e6dff2af42006e137e91f09298d3026aa6f84b928b2bccd1e26336876 excerpts: - start_line: 30 end_line: 43 text: |2 shared_uniparc_id: null same_taxon: true reference_proteome: UP000006729 proteome_is_reference: true proteome_taxon_matches: true primary_in_reference_proteome: false alternative_in_reference_proteome: true sampled_history_versions: - 97 - 113 - 124 sampled_versions_with_proteome_links: [] current_records: - entryType: UniProtKB reviewed (Swiss-Prot) - start_line: 1940 end_line: 1944 text: |2 FH FT source 1..2380 FT /organism="Populus trichocarpa x Populus deltoides" FT /mol_type="mRNA" FT /dev_stage="young leaf" - path: genes/POPTR/PAL/PAL-bioinformatics/reference-counterparts/comparison.yaml url: https://github.com/ai4curation/uniprot-orphan-analysis/blob/f6a331cb47f61256ad070bbaa75567094ef64e8a/genes/POPTR/PAL/PAL-bioinformatics/reference-counterparts/comparison.yaml sha256: 07ddc1ca5b64626d74f329c8589883b47e2aef1cac4fdae0da2aa405b4fec660 excerpts: - start_line: 50 end_line: 62 text: |2 bit_score: 1424.0 global_score: 3652.0 query_length: 715 target_length: 715 alignment_columns: 715 identities: 714 mismatches: 1 gap_columns: 0 identity_percent: 99.8601 query_coverage_percent: 100.0 target_coverage_percent: 100.0 substitutions: - query_position: 22 comparison: provenance: query_accession: P45730 run_at: '2026-10-18T23:25:32.050401+00:00' biopython_version: '1.85' mmseqs_version: 18-8cc5c command: - mmseqs - easy-search - genes/POPTR/PAL/PAL-bioinformatics/reference-counterparts/query.fasta - .cache/orphan-curated/UP000006729.fasta - genes/POPTR/PAL/PAL-bioinformatics/reference-counterparts/search.tsv - genes/POPTR/PAL/PAL-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: 77340 query_sha256: 84654457a0cfe6bbaa185c98351cf47e13912edf4c8d6ac0b5f0a945859e4882 targets_sha256: 988d46285688cd97f593b97011935be87d007e7844c778e1d5c30ba9839dc4c0 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%3AUP000006729&format=fasta retrieved_at: '2026-10-18T23:23:27.698811+00:00' uniprot_release: '2026_03' sequence_count: 77340 candidate_count: 8 retained_alignment_count: 8 candidates: - accession: A0A2K1XD28 description: tr|A0A2K1XD28|A0A2K1XD28_POPTR Phenylalanine ammonia-lyase OS=Populus trichocarpa OX=3694 GN=POPTR_016G091100 PE=3 SV=1 evalue: 0.0 bit_score: 1424.0 global_score: 3652.0 query_length: 715 target_length: 715 alignment_columns: 715 identities: 714 mismatches: 1 gap_columns: 0 identity_percent: 99.8601 query_coverage_percent: 100.0 target_coverage_percent: 100.0 - accession: A0A2K2A1A8 description: tr|A0A2K2A1A8|A0A2K2A1A8_POPTR Phenylalanine ammonia-lyase OS=Populus trichocarpa OX=3694 GN=POPTR_006G126800 PE=3 SV=1 evalue: 0.0 bit_score: 1361.0 global_score: 3492.0 query_length: 715 target_length: 714 alignment_columns: 715 identities: 682 mismatches: 32 gap_columns: 1 identity_percent: 95.3846 query_coverage_percent: 99.8601 target_coverage_percent: 100.0