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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: 9-137008510-C-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=9&pos=137008510&ref=C&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "9",
"pos": 137008510,
"ref": "C",
"alt": "G",
"effect": "missense_variant",
"transcript": "NM_001606.5",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 48,
"exon_rank_end": null,
"exon_count": 49,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "c.7181G>C",
"hgvs_p": "p.Arg2394Pro",
"transcript": "NM_001606.5",
"protein_id": "NP_001597.2",
"transcript_support_level": null,
"aa_start": 2394,
"aa_end": null,
"aa_length": 2436,
"cds_start": 7181,
"cds_end": null,
"cds_length": 7311,
"cdna_start": 7278,
"cdna_end": null,
"cdna_length": 8103,
"mane_select": "ENST00000341511.11",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "P",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 48,
"exon_rank_end": null,
"exon_count": 49,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "c.7181G>C",
"hgvs_p": "p.Arg2394Pro",
"transcript": "ENST00000341511.11",
"protein_id": "ENSP00000344155.6",
"transcript_support_level": 5,
"aa_start": 2394,
"aa_end": null,
"aa_length": 2436,
"cds_start": 7181,
"cds_end": null,
"cds_length": 7311,
"cdna_start": 7278,
"cdna_end": null,
"cdna_length": 8103,
"mane_select": "NM_001606.5",
"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": 46,
"exon_rank_end": null,
"exon_count": 47,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "n.7391G>C",
"hgvs_p": null,
"transcript": "ENST00000459850.5",
"protein_id": null,
"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": 8073,
"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": 2,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "n.171G>C",
"hgvs_p": null,
"transcript": "ENST00000464157.1",
"protein_id": null,
"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": 445,
"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": 34,
"exon_rank_end": null,
"exon_count": 35,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "n.*1153G>C",
"hgvs_p": null,
"transcript": "ENST00000479446.5",
"protein_id": "ENSP00000420084.1",
"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": 6295,
"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": 46,
"exon_rank_end": null,
"exon_count": 47,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "n.*4336G>C",
"hgvs_p": null,
"transcript": "ENST00000487109.5",
"protein_id": "ENSP00000418662.1",
"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": 8031,
"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": 34,
"exon_rank_end": null,
"exon_count": 35,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "n.*1153G>C",
"hgvs_p": null,
"transcript": "ENST00000479446.5",
"protein_id": "ENSP00000420084.1",
"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": 6295,
"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": 46,
"exon_rank_end": null,
"exon_count": 47,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "n.*4336G>C",
"hgvs_p": null,
"transcript": "ENST00000487109.5",
"protein_id": "ENSP00000418662.1",
"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": 8031,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 48,
"exon_rank_end": null,
"exon_count": 49,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "c.7271G>C",
"hgvs_p": "p.Arg2424Pro",
"transcript": "NM_212533.3",
"protein_id": "NP_997698.1",
"transcript_support_level": null,
"aa_start": 2424,
"aa_end": null,
"aa_length": 2466,
"cds_start": 7271,
"cds_end": null,
"cds_length": 7401,
"cdna_start": 7321,
"cdna_end": null,
"cdna_length": 8146,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 48,
"exon_rank_end": null,
"exon_count": 49,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "c.7271G>C",
"hgvs_p": "p.Arg2424Pro",
"transcript": "ENST00000614293.5",
"protein_id": "ENSP00000481105.2",
"transcript_support_level": 5,
"aa_start": 2424,
"aa_end": null,
"aa_length": 2466,
"cds_start": 7271,
"cds_end": null,
"cds_length": 7401,
"cdna_start": 7277,
"cdna_end": null,
"cdna_length": 8102,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 47,
"exon_rank_end": null,
"exon_count": 48,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "c.7178G>C",
"hgvs_p": "p.Arg2393Pro",
"transcript": "NM_001411042.1",
"protein_id": "NP_001397971.1",
"transcript_support_level": null,
"aa_start": 2393,
"aa_end": null,
"aa_length": 2435,
"cds_start": 7178,
"cds_end": null,
"cds_length": 7308,
"cdna_start": 7275,
"cdna_end": null,
"cdna_length": 8100,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 47,
"exon_rank_end": null,
"exon_count": 48,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "c.7178G>C",
"hgvs_p": "p.Arg2393Pro",
"transcript": "ENST00000371605.7",
"protein_id": "ENSP00000360666.3",
"transcript_support_level": 2,
"aa_start": 2393,
"aa_end": null,
"aa_length": 2435,
"cds_start": 7178,
"cds_end": null,
"cds_length": 7308,
"cdna_start": 7326,
"cdna_end": null,
"cdna_length": 8151,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "c.458G>C",
"hgvs_p": "p.Arg153Pro",
"transcript": "ENST00000490486.2",
"protein_id": "ENSP00000420360.1",
"transcript_support_level": 2,
"aa_start": 153,
"aa_end": null,
"aa_length": 195,
"cds_start": 458,
"cds_end": null,
"cds_length": 588,
"cdna_start": 458,
"cdna_end": null,
"cdna_length": 666,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 47,
"exon_rank_end": null,
"exon_count": 48,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "c.7268G>C",
"hgvs_p": "p.Arg2423Pro",
"transcript": "XM_047422921.1",
"protein_id": "XP_047278877.1",
"transcript_support_level": null,
"aa_start": 2423,
"aa_end": null,
"aa_length": 2465,
"cds_start": 7268,
"cds_end": null,
"cds_length": 7398,
"cdna_start": 7318,
"cdna_end": null,
"cdna_length": 8143,
"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": 3,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"hgvs_c": "n.484G>C",
"hgvs_p": null,
"transcript": "ENST00000464520.1",
"protein_id": null,
"transcript_support_level": 2,
"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": 886,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "ABCA2",
"gene_hgnc_id": 32,
"dbsnp": "rs55971316",
"frequency_reference_population": 6.974619e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 6.97462e-7,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 1,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.5620479583740234,
"computational_prediction_selected": "Uncertain_significance",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.443,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": 0.1432,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.12,
"bayesdelnoaf_prediction": "Uncertain_significance",
"phylop100way_score": 5.862,
"phylop100way_prediction": "Uncertain_significance",
"spliceai_max_score": 0,
"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": 2,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2",
"acmg_by_gene": [
{
"score": 2,
"benign_score": 0,
"pathogenic_score": 2,
"criteria": [
"PM2"
],
"verdict": "Uncertain_significance",
"transcript": "NM_001606.5",
"gene_symbol": "ABCA2",
"hgnc_id": 32,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR,Unknown",
"hgvs_c": "c.7181G>C",
"hgvs_p": "p.Arg2394Pro"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}