Description
Parse a positive coding-position/intronic-offset subset without mapping it to a reference sequence.
Pharmacogenomic records distinguish allele labels, copy counts, reference-sequence versions, coordinate systems, and evidence about chromosome phase. A balanced count or matching token can check a record without establishing the underlying genotype. Supplied activity values and interpretation rules remain separate from a current gene-specific clinical guideline.
Parse a positive coding-position/intronic-offset subset without mapping it to a reference sequence.
When to use this tool
Use Pharmacogene Hgvs Intronic Offset Sign when you need this specific allele-token, reference-coordinate, copy-budget, or source-support check.
How to use the tool and how it works
- Enter token. Use the units and conventions below.
- Run the tool. Correct any format, range, or cross-field input error before interpreting the output.
- Read position, offset, sign. Use the output convention below.
Parse a positive base position followed by + or - and a positive offset magnitude. Return the safe-integer position, signed offset, and literal sign.1
| Input field | Meaning and units | Accepted input |
|---|---|---|
| token | Complete literal token in the grammar stated above. | Required. Text; maximum UTF-16 length 8192. |
| Output field | Interpretation | Returned shape |
|---|---|---|
| position | Positive position coordinate under the explicitly supplied reference convention. | Required. Safe integer. |
| offset | Signed coordinate or time offset under the stated formula. | Required. Safe integer. |
| sign | Sign | Required. Text; maximum UTF-16 length 8192. |
{
"input": {
"token": "123+4"
},
"output": {
"position": 123,
"offset": 4,
"sign": "+"
}
}Limitations and assumptions
- This recognizes one intronic-offset token without a transcript accession, coordinate-system prefix, exon boundary, or strand mapping. Numeric syntax alone does not establish a valid HGVS location.
- Inputs must satisfy both the field types and the cross-field conditions above. Invalid input causes an error; a successful false flag or documented placeholder is a different result.
Alternative or Complementary methods
Use a current gene-specific nomenclature and a validated interpretation process when allele identity, phase, function, or clinical decisions matter. Verify source versions and reference coordinates before combining records.
References
Similar or alternative tools
- Hgvs Intron Offset Closure Flag
Inspect one explicitly signed nonzero intronic offset fragment; not a full HGVS expression or variant validator.
- Pharmacogenomic Variant Hgvs Prefix Token
Split a versioned HGVS accession prefix without validating the variant or reference sequence.