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GeneBe API Showcase
This page demonstrates how to use the GeneBe API to query variant information. The API provides programmatic access to genomic annotations and variant data.
API presented here should be used for checking single variants. If you want to check many variants at once, please use other API endpoints that you will find in the documentation.
Documentation & Advanced Usage
• Complete API documentation:docs.genebe.net/docs/api/overview/
• Interactive endpoint tester:api.genebe.net/cloud/gb-api-doc/swagger-ui/
• Python client for pandas:pypi.org/project/genebe/
• Java CLI for VCF files:github.com/pstawinski/genebe-cli
• All tools documented at:docs.genebe.net
API Request Examples for Variant: 12-57029780-A-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=12&pos=57029780&ref=A&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "12",
"pos": 57029780,
"ref": "A",
"alt": "G",
"effect": "missense_variant",
"transcript": "NM_005379.4",
"consequences": [
{
"aa_ref": "M",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.2684T>C",
"hgvs_p": "p.Met895Thr",
"transcript": "NM_005379.4",
"protein_id": "NP_005370.1",
"transcript_support_level": null,
"aa_start": 895,
"aa_end": null,
"aa_length": 1043,
"cds_start": 2684,
"cds_end": null,
"cds_length": 3132,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000300119.8",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_005379.4"
},
{
"aa_ref": "M",
"aa_alt": "T",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.2684T>C",
"hgvs_p": "p.Met895Thr",
"transcript": "ENST00000300119.8",
"protein_id": "ENSP00000300119.3",
"transcript_support_level": 1,
"aa_start": 895,
"aa_end": null,
"aa_length": 1043,
"cds_start": 2684,
"cds_end": null,
"cds_length": 3132,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_005379.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000300119.8"
},
{
"aa_ref": "M",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 26,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.2684T>C",
"hgvs_p": "p.Met895Thr",
"transcript": "ENST00000442789.6",
"protein_id": "ENSP00000393392.2",
"transcript_support_level": 1,
"aa_start": 895,
"aa_end": null,
"aa_length": 1043,
"cds_start": 2684,
"cds_end": null,
"cds_length": 3132,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000442789.6"
},
{
"aa_ref": "M",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.2816T>C",
"hgvs_p": "p.Met939Thr",
"transcript": "ENST00000907120.1",
"protein_id": "ENSP00000577179.1",
"transcript_support_level": null,
"aa_start": 939,
"aa_end": null,
"aa_length": 1087,
"cds_start": 2816,
"cds_end": null,
"cds_length": 3264,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000907120.1"
},
{
"aa_ref": "M",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 26,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.2684T>C",
"hgvs_p": "p.Met895Thr",
"transcript": "NM_001256041.2",
"protein_id": "NP_001242970.1",
"transcript_support_level": null,
"aa_start": 895,
"aa_end": null,
"aa_length": 1043,
"cds_start": 2684,
"cds_end": null,
"cds_length": 3132,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001256041.2"
},
{
"aa_ref": "M",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.2684T>C",
"hgvs_p": "p.Met895Thr",
"transcript": "ENST00000907119.1",
"protein_id": "ENSP00000577178.1",
"transcript_support_level": null,
"aa_start": 895,
"aa_end": null,
"aa_length": 1043,
"cds_start": 2684,
"cds_end": null,
"cds_length": 3132,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000907119.1"
},
{
"aa_ref": "M",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.2651T>C",
"hgvs_p": "p.Met884Thr",
"transcript": "ENST00000907121.1",
"protein_id": "ENSP00000577180.1",
"transcript_support_level": null,
"aa_start": 884,
"aa_end": null,
"aa_length": 1032,
"cds_start": 2651,
"cds_end": null,
"cds_length": 3099,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000907121.1"
},
{
"aa_ref": "M",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.2615T>C",
"hgvs_p": "p.Met872Thr",
"transcript": "ENST00000966311.1",
"protein_id": "ENSP00000636371.1",
"transcript_support_level": null,
"aa_start": 872,
"aa_end": null,
"aa_length": 1020,
"cds_start": 2615,
"cds_end": null,
"cds_length": 3063,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000966311.1"
},
{
"aa_ref": "M",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 26,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.2432T>C",
"hgvs_p": "p.Met811Thr",
"transcript": "ENST00000907118.1",
"protein_id": "ENSP00000577177.1",
"transcript_support_level": null,
"aa_start": 811,
"aa_end": null,
"aa_length": 959,
"cds_start": 2432,
"cds_end": null,
"cds_length": 2880,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000907118.1"
},
{
"aa_ref": "M",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 26,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.2684T>C",
"hgvs_p": "p.Met895Thr",
"transcript": "XM_047428876.1",
"protein_id": "XP_047284832.1",
"transcript_support_level": null,
"aa_start": 895,
"aa_end": null,
"aa_length": 1043,
"cds_start": 2684,
"cds_end": null,
"cds_length": 3132,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047428876.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "n.247T>C",
"hgvs_p": null,
"transcript": "ENST00000477864.1",
"protein_id": null,
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000477864.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "n.*129T>C",
"hgvs_p": null,
"transcript": "ENST00000554234.5",
"protein_id": "ENSP00000451033.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000554234.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "n.*129T>C",
"hgvs_p": null,
"transcript": "ENST00000554234.5",
"protein_id": "ENSP00000451033.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000554234.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 25,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "c.*241T>C",
"hgvs_p": null,
"transcript": "XM_011538373.3",
"protein_id": "XP_011536675.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 866,
"cds_start": null,
"cds_end": null,
"cds_length": 2601,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011538373.3"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"hgvs_c": "n.*183T>C",
"hgvs_p": null,
"transcript": "ENST00000487083.1",
"protein_id": null,
"transcript_support_level": 3,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000487083.1"
}
],
"gene_symbol": "MYO1A",
"gene_hgnc_id": 7595,
"dbsnp": "rs148582008",
"frequency_reference_population": 0.0001400097,
"hom_count_reference_population": 0,
"allele_count_reference_population": 226,
"gnomad_exomes_af": 0.000142965,
"gnomad_genomes_af": 0.000111635,
"gnomad_exomes_ac": 209,
"gnomad_genomes_ac": 17,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.1247793436050415,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.009999999776482582,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.15,
"revel_prediction": "Benign",
"alphamissense_score": 0.229,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.42,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 8.074,
"phylop100way_prediction": "Pathogenic",
"spliceai_max_score": 0.01,
"spliceai_max_prediction": "Benign",
"dbscsnv_ada_score": null,
"dbscsnv_ada_prediction": null,
"apogee2_score": null,
"apogee2_prediction": null,
"mitotip_score": null,
"mitotip_prediction": null,
"acmg_score": -7,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Moderate,BP6,BS2",
"acmg_by_gene": [
{
"score": -7,
"benign_score": 7,
"pathogenic_score": 0,
"criteria": [
"BP4_Moderate",
"BP6",
"BS2"
],
"verdict": "Benign",
"transcript": "NM_005379.4",
"gene_symbol": "MYO1A",
"hgnc_id": 7595,
"effects": [
"missense_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.2684T>C",
"hgvs_p": "p.Met895Thr"
}
],
"clinvar_disease": "not provided,not specified",
"clinvar_classification": "Conflicting classifications of pathogenicity",
"clinvar_review_status": "criteria provided, conflicting classifications",
"clinvar_submissions_summary": "US:1 LB:1",
"phenotype_combined": "not specified|not provided",
"pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
"custom_annotations": null
}
],
"message": null
}