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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: 21-34799341-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=21&pos=34799341&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "21",
"pos": 34799341,
"ref": "G",
"alt": "A",
"effect": "synonymous_variant",
"transcript": "ENST00000675419.1",
"consequences": [
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.927C>T",
"hgvs_p": "p.Gly309Gly",
"transcript": "NM_001754.5",
"protein_id": "NP_001745.2",
"transcript_support_level": null,
"aa_start": 309,
"aa_end": null,
"aa_length": 480,
"cds_start": 927,
"cds_end": null,
"cds_length": 1443,
"cdna_start": 1121,
"cdna_end": null,
"cdna_length": 5971,
"mane_select": "ENST00000675419.1",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.927C>T",
"hgvs_p": "p.Gly309Gly",
"transcript": "ENST00000675419.1",
"protein_id": "ENSP00000501943.1",
"transcript_support_level": null,
"aa_start": 309,
"aa_end": null,
"aa_length": 480,
"cds_start": 927,
"cds_end": null,
"cds_length": 1443,
"cdna_start": 1121,
"cdna_end": null,
"cdna_length": 5971,
"mane_select": "NM_001754.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.927C>T",
"hgvs_p": "p.Gly309Gly",
"transcript": "ENST00000300305.7",
"protein_id": "ENSP00000300305.3",
"transcript_support_level": 1,
"aa_start": 309,
"aa_end": null,
"aa_length": 480,
"cds_start": 927,
"cds_end": null,
"cds_length": 1443,
"cdna_start": 1372,
"cdna_end": null,
"cdna_length": 6222,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.846C>T",
"hgvs_p": "p.Gly282Gly",
"transcript": "ENST00000344691.8",
"protein_id": "ENSP00000340690.4",
"transcript_support_level": 1,
"aa_start": 282,
"aa_end": null,
"aa_length": 453,
"cds_start": 846,
"cds_end": null,
"cds_length": 1362,
"cdna_start": 2424,
"cdna_end": null,
"cdna_length": 7274,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "n.*517C>T",
"hgvs_p": null,
"transcript": "ENST00000482318.5",
"protein_id": "ENSP00000477067.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": -4,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1710,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "n.*517C>T",
"hgvs_p": null,
"transcript": "ENST00000482318.5",
"protein_id": "ENSP00000477067.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": -4,
"cds_end": null,
"cds_length": null,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1710,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.846C>T",
"hgvs_p": "p.Gly282Gly",
"transcript": "NM_001001890.3",
"protein_id": "NP_001001890.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 453,
"cds_start": 846,
"cds_end": null,
"cds_length": 1362,
"cdna_start": 2433,
"cdna_end": null,
"cdna_length": 7283,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.654C>T",
"hgvs_p": "p.Gly218Gly",
"transcript": "ENST00000399240.5",
"protein_id": "ENSP00000382184.1",
"transcript_support_level": 3,
"aa_start": 218,
"aa_end": null,
"aa_length": 389,
"cds_start": 654,
"cds_end": null,
"cds_length": 1170,
"cdna_start": 725,
"cdna_end": null,
"cdna_length": 1590,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.927C>T",
"hgvs_p": "p.Gly309Gly",
"transcript": "XM_011529766.3",
"protein_id": "XP_011528068.1",
"transcript_support_level": null,
"aa_start": 309,
"aa_end": null,
"aa_length": 480,
"cds_start": 927,
"cds_end": null,
"cds_length": 1443,
"cdna_start": 1208,
"cdna_end": null,
"cdna_length": 6058,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.927C>T",
"hgvs_p": "p.Gly309Gly",
"transcript": "XM_047441007.1",
"protein_id": "XP_047296963.1",
"transcript_support_level": null,
"aa_start": 309,
"aa_end": null,
"aa_length": 480,
"cds_start": 927,
"cds_end": null,
"cds_length": 1443,
"cdna_start": 1330,
"cdna_end": null,
"cdna_length": 6180,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.891C>T",
"hgvs_p": "p.Gly297Gly",
"transcript": "XM_005261068.4",
"protein_id": "XP_005261125.1",
"transcript_support_level": null,
"aa_start": 297,
"aa_end": null,
"aa_length": 468,
"cds_start": 891,
"cds_end": null,
"cds_length": 1407,
"cdna_start": 914,
"cdna_end": null,
"cdna_length": 5764,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.888C>T",
"hgvs_p": "p.Gly296Gly",
"transcript": "XM_011529767.3",
"protein_id": "XP_011528069.1",
"transcript_support_level": null,
"aa_start": 296,
"aa_end": null,
"aa_length": 467,
"cds_start": 888,
"cds_end": null,
"cds_length": 1404,
"cdna_start": 1082,
"cdna_end": null,
"cdna_length": 5932,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.888C>T",
"hgvs_p": "p.Gly296Gly",
"transcript": "XM_047441009.1",
"protein_id": "XP_047296965.1",
"transcript_support_level": null,
"aa_start": 296,
"aa_end": null,
"aa_length": 467,
"cds_start": 888,
"cds_end": null,
"cds_length": 1404,
"cdna_start": 1291,
"cdna_end": null,
"cdna_length": 6141,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.888C>T",
"hgvs_p": "p.Gly296Gly",
"transcript": "XM_047441010.1",
"protein_id": "XP_047296966.1",
"transcript_support_level": null,
"aa_start": 296,
"aa_end": null,
"aa_length": 467,
"cds_start": 888,
"cds_end": null,
"cds_length": 1404,
"cdna_start": 1169,
"cdna_end": null,
"cdna_length": 6019,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.735C>T",
"hgvs_p": "p.Gly245Gly",
"transcript": "XM_005261069.5",
"protein_id": "XP_005261126.1",
"transcript_support_level": null,
"aa_start": 245,
"aa_end": null,
"aa_length": 416,
"cds_start": 735,
"cds_end": null,
"cds_length": 1251,
"cdna_start": 929,
"cdna_end": null,
"cdna_length": 5779,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.735C>T",
"hgvs_p": "p.Gly245Gly",
"transcript": "XM_047441011.1",
"protein_id": "XP_047296967.1",
"transcript_support_level": null,
"aa_start": 245,
"aa_end": null,
"aa_length": 416,
"cds_start": 735,
"cds_end": null,
"cds_length": 1251,
"cdna_start": 1138,
"cdna_end": null,
"cdna_length": 5988,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.735C>T",
"hgvs_p": "p.Gly245Gly",
"transcript": "XM_047441012.1",
"protein_id": "XP_047296968.1",
"transcript_support_level": null,
"aa_start": 245,
"aa_end": null,
"aa_length": 416,
"cds_start": 735,
"cds_end": null,
"cds_length": 1251,
"cdna_start": 1016,
"cdna_end": null,
"cdna_length": 5866,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.699C>T",
"hgvs_p": "p.Gly233Gly",
"transcript": "XM_047441013.1",
"protein_id": "XP_047296969.1",
"transcript_support_level": null,
"aa_start": 233,
"aa_end": null,
"aa_length": 404,
"cds_start": 699,
"cds_end": null,
"cds_length": 1215,
"cdna_start": 722,
"cdna_end": null,
"cdna_length": 5572,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.696C>T",
"hgvs_p": "p.Gly232Gly",
"transcript": "XM_011529768.3",
"protein_id": "XP_011528070.1",
"transcript_support_level": null,
"aa_start": 232,
"aa_end": null,
"aa_length": 403,
"cds_start": 696,
"cds_end": null,
"cds_length": 1212,
"cdna_start": 890,
"cdna_end": null,
"cdna_length": 5740,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.696C>T",
"hgvs_p": "p.Gly232Gly",
"transcript": "XM_047441014.1",
"protein_id": "XP_047296970.1",
"transcript_support_level": null,
"aa_start": 232,
"aa_end": null,
"aa_length": 403,
"cds_start": 696,
"cds_end": null,
"cds_length": 1212,
"cdna_start": 1099,
"cdna_end": null,
"cdna_length": 5949,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "G",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"hgvs_c": "c.696C>T",
"hgvs_p": "p.Gly232Gly",
"transcript": "XM_047441015.1",
"protein_id": "XP_047296971.1",
"transcript_support_level": null,
"aa_start": 232,
"aa_end": null,
"aa_length": 403,
"cds_start": 696,
"cds_end": null,
"cds_length": 1212,
"cdna_start": 977,
"cdna_end": null,
"cdna_length": 5827,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "RUNX1",
"gene_hgnc_id": 10471,
"dbsnp": "rs59802347",
"frequency_reference_population": 0.0018981445,
"hom_count_reference_population": 33,
"allele_count_reference_population": 3064,
"gnomad_exomes_af": 0.00102539,
"gnomad_genomes_af": 0.010274,
"gnomad_exomes_ac": 1499,
"gnomad_genomes_ac": 1565,
"gnomad_exomes_homalt": 9,
"gnomad_genomes_homalt": 24,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.3700000047683716,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0.029999999329447746,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.37,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 1.013,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.03,
"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": -9,
"acmg_classification": "Benign",
"acmg_criteria": "BA1,BP2",
"acmg_by_gene": [
{
"score": -9,
"benign_score": 9,
"pathogenic_score": 0,
"criteria": [
"BA1",
"BP2"
],
"verdict": "Benign",
"transcript": "ENST00000675419.1",
"gene_symbol": "RUNX1",
"hgnc_id": 10471,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.927C>T",
"hgvs_p": "p.Gly309Gly"
}
],
"clinvar_disease": "Acute myeloid leukemia,Hereditary thrombocytopenia and hematologic cancer predisposition syndrome,Hereditary thrombocytopenia and hematological cancer predisposition syndrome associated with RUNX1,Inborn genetic diseases,RUNX1-related disorder,not provided",
"clinvar_classification": "Benign",
"clinvar_review_status": "reviewed by expert panel",
"clinvar_submissions_summary": "LB:1 B:7",
"phenotype_combined": "Hereditary thrombocytopenia and hematological cancer predisposition syndrome associated with RUNX1|not provided|Hereditary thrombocytopenia and hematologic cancer predisposition syndrome|Acute myeloid leukemia|RUNX1-related disorder|Inborn genetic diseases",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}