How do I get the reference allele from this Ensembl variation endpoint?
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4.9 years ago

Looking at: https://rest.ensembl.org/documentation/info/variation_id

is there a consistent way to tell what the reference allele is?

ensembl • 863 views
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Something like this:

http://rest.ensembl.org/variation/human/rs1364535

    MAF: '0.101837'
ambiguity: W
ancestral_allele: T
evidence: 
  - Frequency
  - HapMap
  - 1000Genomes
  - TOPMed
  - gnomAD
mappings: 
  - 
    allele_string: T/A
    assembly_name: GRCh38
    coord_system: chromosome
    end: 154120318
    location: 2:154120318-154120318
    seq_region_name: 2
    start: 154120318
    strand: 1
minor_allele: A
most_severe_consequence: intron_variant
name: rs1364535
source: Variants (including SNPs and indels) imported from dbSNP
synonyms: 
  - NM_052917.3:c.143-20019T>A
  - NM_001301627.1:c.143-20019T>A
var_class: SNP
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Right so how do I know consistently that it’s T

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4.9 years ago
GenoMax 141k

Check the answer from @Ben here: C: Reference and mutant allele of a SNP rsID

allele_string: T/A: This is reference allele / alternate allele. T is reference and A is alternate.

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