OPRK1
Enable an agent to identify OPRK1, distinguish its gene identity from its receptor product, and assess expression, variation and functional evidence in a specified biological context.
Bundle → Layer → Finding → Questions Filled
6 bundles · 11 layers · 15 findings · 25 questions
OPRK1 identity and boundaries Resolve which biological entity the registry name denotes.
Species and locus
Establish organism-qualified identity before integrating observations.
Authoritative OPRK1 mapping
Require the registry record to resolve to an authoritative gene identifier and organism.
- Which source identifier originally placed OPRK1 in vr.tr.oprk1, and which organism does it specify? provenance
- Does that source identify a gene locus, a receptor protein or a broader cross-species concept? boundary
Gene-product separation
Keep aliases and encoded products connected without treating them as identical entities.
Receptor alias resolution
Record whether each OPRK1, KOR or KOP usage denotes DNA, RNA, protein or experimental material.
- What molecular entity does each alias denote in the source being interpreted? definition
- Does an existing registry or world model already own the kappa-type opioid receptor concept? boundary
OPRK1 sequence and products Connect genomic references, transcripts and translated products.
Genomic reference
Anchor locus and allele descriptions to reproducible coordinates.
Reference-dependent variation
Keep observed OPRK1 alleles separate from consequence predictions.
- Which assembly, accession version and allele representation define the observed OPRK1 variant? definition
- Which variant consequences are predicted, and which have direct experimental support? provenance
Transcripts and translation
Resolve the products relevant to each observation.
Product-specific evidence
Track transcript and protein accessions, including evidence for alternative products; NCBI reports alternative transcripts and translational readthrough for OPRK1. [NCBI Gene](https://www.ncbi.nlm.nih.gov/gene/4986)
- Which transcript and protein sequence were measured or expressed in the cited experiment? provenance
- What evidence establishes the relevant alternative or readthrough product in the biological context under study? measurement
OPRK1 expression and receptor availability Distinguish transcription from the presence and accessibility of the encoded receptor.
Transcript detection
Qualify OPRK1 expression by sample composition and assay sensitivity.
Contextualized RNA abundance
Attach tissue, cell type, sampling conditions and normalization to expression observations.
- Which cells or tissue contributed the OPRK1 RNA measurement, and was the sample mixed or cell-resolved? provenance
- What normalization, detection limit and transcript specificity govern the reported abundance? measurement
Protein detection and location
Assess whether the encoded receptor is detected and accessible in the measured system.
Validated receptor availability
Require receptor-specific detection and distinguish surface-associated from intracellular signal.
- What controls establish that the detected protein signal comes from the OPRK1 product? provenance
- Does the assay quantify total receptor, surface receptor or ligand-accessible receptor? measurement
OPRK1-linked receptor function Attach binding and signaling observations to the encoded product actually tested.
Ligand recognition
Record product-specific ligand interactions and their experimental limits.
Binding and selectivity
The human reference receptor recognizes dynorphins; individual binding and selectivity claims still require assay-specific evidence. [UniProt P41145](https://www.uniprot.org/uniprotkb/P41145/entry)
- Which ligand, OPRK1 product and assay conditions support the reported binding measurement? measurement
- Which other opioid receptors were tested before describing the interaction as kappa-selective? boundary
Signaling response
Separate receptor engagement from the downstream endpoint measured.
Endpoint-specific function
Represent each response with its endpoint, baseline, time course and experimental system.
- Which signaling endpoint was measured, and what were its baseline, reference response and observation time? measurement
- What evidence connects the response to the specified OPRK1 product rather than another target or assay artifact? provenance
OPRK1 perturbation and inference Assess what experiments and associations justify concluding about OPRK1.
Experimental attribution
Evaluate OPRK1-directed perturbations against relevant controls.
Perturbation specificity
Track the target sequence, altered product and controls behind a claimed OPRK1-dependent effect.
- Did the intervention alter OPRK1 DNA, RNA abundance, receptor abundance or receptor activity? definition
- Which rescue, independent perturbation or receptor-comparison experiment would resolve the remaining attribution uncertainty? action
Phenotype and transfer
Bound conclusions drawn from genetic associations and model systems.
Limits of OPRK1 interpretation
Keep association, experimental causation and transfer to another biological context explicitly separate.
- Does the phenotype evidence concern an OPRK1 variant, expression change or receptor perturbation, and what alternatives remain? provenance
- What evidence permits transferring the conclusion across species, cell systems or endogenous versus engineered expression? boundary
Evidence and external alignment What the world already says about this thing, gathered so the model can be checked against it.
Reported evidence
Findings from the breadth pass, kept separate from the structural claims.
Check these first
Recalled without web access and unsourced; every item is a lead to verify.
- Which of these check these first hold for the sense of OPRK1 this model covers, and on what evidence? provenance
Identifiers and schemes
Recalled without web access and unsourced; every item is a lead to verify.
- Which of these identifiers and schemes hold for the sense of OPRK1 this model covers, and on what evidence? provenance
Real-world use
Recalled without web access and unsourced; every item is a lead to verify.
- Which of these real-world use hold for the sense of OPRK1 this model covers, and on what evidence? provenance
Failure modes and hazards
Recalled without web access and unsourced; every item is a lead to verify.
- Which of these failure modes and hazards hold for the sense of OPRK1 this model covers, and on what evidence? provenance
Neighbouring kinds and how to tell them apart
Recalled without web access and unsourced; every item is a lead to verify.
- Which of these neighbouring kinds and how to tell them apart hold for the sense of OPRK1 this model covers, and on what evidence? provenance
Classifiers Filled
- Family
- Thing Registry
- Category
- Physical world and living systems
- Entry kind
- thing
- Plane
- PHY
- Domain
- PHY.OBJ
What it is Filled
OPRK1 is the human gene encoding the kappa opioid receptor, a seven-transmembrane G protein-coupled receptor activated by endogenous dynorphin peptides and involved in modulating neuronal signalling.
In scope
- Species-qualified OPRK1 identity and reference sequence mappings
- Genomic variants and their transcript-dependent consequences
- OPRK1 transcript expression and its relationship to receptor abundance
- Links from encoded receptor products to binding and signaling observations
- Evidence needed to attribute an experimental effect specifically to OPRK1
Out of scope
- Independent models of opioid ligands and pharmaceutical formulations
- Complete models of other opioid receptor genes
- Whole-organism models of pain, addiction or mood
- Patient diagnosis and treatment selection
- General laboratory protocols and instrument operation
- Separate publication of receptor products or orthologs without resolving registry coverage
Why it exists Filled
Enable an agent to identify OPRK1, distinguish its gene identity from its receptor product, and assess expression, variation and functional evidence in a specified biological context.
Distinguishing features Filled
- Resolve an identifier to OPRK1 in a named species; the symbol alone does not establish organism identity.
- Distinguish a genomic accession from an OPRK1 transcript accession and an encoded receptor protein accession before attaching observations.
- Require sequence or authoritative identifier mapping to distinguish OPRK1 from OPRM1, OPRD1 and OPRL1.
- Treat KOR or KOP labels as candidate receptor aliases requiring identity resolution, rather than proof that a record describes the gene.
- Distinguish endogenous OPRK1 from tagged, mutated or overexpressed constructs before transferring functional conclusions.
What robots and AI may and may not do Filled
Must not
- Interpret a person's OPRK1 variant as predicting addiction or behaviour.
- Share a person's genetic data without consent.
- Recommend drugs acting on this receptor to a person.
- Assist in obtaining controlled substances that act on opioid receptors outside lawful channels.
Only with a human decision
- Using genetic results in clinical or treatment decisions.
- Research on patient samples without documented consent.
May
- Describe OPRK1 and the kappa opioid receptor it encodes, citing sources.
- Report what a variant or expression result shows, with its source and limits.
Moral aspects Filled
- Genetic links to addiction can stigmatize people if overstated.
- Drugs acting on opioid receptors can be misused and cause harm.
Who is affected
- People with genetic test results
- People living with addiction
- Patients
Owners Filled
Steward
The person whose genome carries it; laboratories and biobanks hold sequence records.
Master systems
- Gene and variant databases
Links to other meta-models Filled
parent
- Q20747295 - registry parent class
What else AI and robots need to interact with it Filled
Identity and identifiers required Filled
- Vercy registry: vr.tr.oprk1
- Wikidata: Q14897645 (https://www.wikidata.org/wiki/Q14897645)
Direct properties required Filled
- Biological entity level: gene locus | allele | transcript | encoded protein | experimental construct
- Organism identity: Taxonomy identifier and organism name
- Reference sequence context: Genome assembly, accession version, coordinates and strand
- Transcript-to-product mapping: Versioned transcript accession linked to versioned protein accession
- OPRK1 transcript abundance: TPM, counts or assay-specific relative expression with normalization
- Encoded receptor localization: Surface-detected | intracellular-detected | mixed | undetected | unresolved, with method
- Variant consequence: Reference-dependent consequence annotation plus experimental support status
- Receptor response measurement: Endpoint-specific units; concentration in mol/L where applicable; comparator and uncertainty required
Recognition required Filled
- Not visible; known from sequence data and receptor assays.
- Identified by its approved gene symbol and genomic location.
Capabilities and actions required Filled
- Resolve an OPRK1 label to a species-qualified gene, transcript or receptor record.
- Map an observed sequence variant onto an explicitly versioned OPRK1 reference.
- Compare OPRK1 expression observations with compatible biological and analytical contexts.
- Trace a receptor assay result back to the OPRK1 sequence and construct tested.
- Evaluate whether genetic and pharmacological controls support OPRK1-specific attribution.
- Flag unsupported transfers between species, molecular products or experimental systems.
Hazards and failure modes required Filled
- Overinterpretation of variant associations.
- Privacy breaches of genetic data.
Standards and interfaces required Filled
- Human gene nomenclature, HUGO Gene Nomenclature Committee (HGNC), which approves the gene symbol.
Context of use required Filled
- The human OPRK1 gene is encountered in genetic and gene expression studies of neuronal signalling and opioid receptor biology.
- It provides a reference for examining sequence variation and transcript expression in relation to the encoded kappa opioid receptor.
Sources Filled
- Wikidata item Q14897645: OPRK1 - identity and sense of the item
- Wikipedia: Κ-opioid receptor - general description of the item
Open questions
- Does the registry's originating identifier designate human OPRK1, its receptor product or a species-independent concept?
- Does an existing world model already cover this gene or receptor, requiring linkage instead of a separate publication?
- Which transcript and protein reference versions should anchor the model, and which alternative products have context-specific experimental support?
- Which expression and receptor-detection datasets provide sufficiently specific evidence for the intended uses?
- Which OPRK1 variant and phenotype claims survive replication and experiments that distinguish association from causation?
Machine files
Provenance
thing registry research (pass 2) · unreviewed
Built from: models/things/publications/thing-q14897645/spec.json