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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: 2-190213017-C-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=190213017&ref=C&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 190213017,
"ref": "C",
"alt": "A",
"effect": "missense_variant",
"transcript": "ENST00000359678.10",
"consequences": [
{
"aa_ref": "G",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "c.950G>T",
"hgvs_p": "p.Gly317Val",
"transcript": "NM_014362.4",
"protein_id": "NP_055177.2",
"transcript_support_level": null,
"aa_start": 317,
"aa_end": null,
"aa_length": 386,
"cds_start": 950,
"cds_end": null,
"cds_length": 1161,
"cdna_start": 1026,
"cdna_end": null,
"cdna_length": 2434,
"mane_select": "ENST00000359678.10",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "V",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "c.950G>T",
"hgvs_p": "p.Gly317Val",
"transcript": "ENST00000359678.10",
"protein_id": "ENSP00000352706.5",
"transcript_support_level": 1,
"aa_start": 317,
"aa_end": null,
"aa_length": 386,
"cds_start": 950,
"cds_end": null,
"cds_length": 1161,
"cdna_start": 1026,
"cdna_end": null,
"cdna_length": 2434,
"mane_select": "NM_014362.4",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "c.950G>T",
"hgvs_p": "p.Gly317Val",
"transcript": "ENST00000392332.7",
"protein_id": "ENSP00000376144.3",
"transcript_support_level": 1,
"aa_start": 317,
"aa_end": null,
"aa_length": 338,
"cds_start": 950,
"cds_end": null,
"cds_length": 1017,
"cdna_start": 1090,
"cdna_end": null,
"cdna_length": 2463,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "c.950G>T",
"hgvs_p": "p.Gly317Val",
"transcript": "NM_198047.3",
"protein_id": "NP_932164.1",
"transcript_support_level": null,
"aa_start": 317,
"aa_end": null,
"aa_length": 338,
"cds_start": 950,
"cds_end": null,
"cds_length": 1017,
"cdna_start": 1026,
"cdna_end": null,
"cdna_length": 2400,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "c.281G>T",
"hgvs_p": "p.Gly94Val",
"transcript": "ENST00000410045.5",
"protein_id": "ENSP00000386274.1",
"transcript_support_level": 3,
"aa_start": 94,
"aa_end": null,
"aa_length": 163,
"cds_start": 281,
"cds_end": null,
"cds_length": 492,
"cdna_start": 541,
"cdna_end": null,
"cdna_length": 854,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "V",
"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": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "c.290G>T",
"hgvs_p": "p.Gly97Val",
"transcript": "ENST00000409820.2",
"protein_id": "ENSP00000387098.2",
"transcript_support_level": 3,
"aa_start": 97,
"aa_end": null,
"aa_length": 127,
"cds_start": 290,
"cds_end": null,
"cds_length": 385,
"cdna_start": 416,
"cdna_end": null,
"cdna_length": 511,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "c.203G>T",
"hgvs_p": "p.Gly68Val",
"transcript": "ENST00000416732.5",
"protein_id": "ENSP00000399263.1",
"transcript_support_level": 2,
"aa_start": 68,
"aa_end": null,
"aa_length": 119,
"cds_start": 203,
"cds_end": null,
"cds_length": 360,
"cdna_start": 203,
"cdna_end": null,
"cdna_length": 502,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "c.950G>T",
"hgvs_p": "p.Gly317Val",
"transcript": "XM_011510953.3",
"protein_id": "XP_011509255.1",
"transcript_support_level": null,
"aa_start": 317,
"aa_end": null,
"aa_length": 386,
"cds_start": 950,
"cds_end": null,
"cds_length": 1161,
"cdna_start": 1026,
"cdna_end": null,
"cdna_length": 1423,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 12,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "c.950G>T",
"hgvs_p": "p.Gly317Val",
"transcript": "XM_047443905.1",
"protein_id": "XP_047299861.1",
"transcript_support_level": null,
"aa_start": 317,
"aa_end": null,
"aa_length": 386,
"cds_start": 950,
"cds_end": null,
"cds_length": 1161,
"cdna_start": 1026,
"cdna_end": null,
"cdna_length": 15408,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "G",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "c.452G>T",
"hgvs_p": "p.Gly151Val",
"transcript": "XM_011510954.2",
"protein_id": "XP_011509256.1",
"transcript_support_level": null,
"aa_start": 151,
"aa_end": null,
"aa_length": 220,
"cds_start": 452,
"cds_end": null,
"cds_length": 663,
"cdna_start": 650,
"cdna_end": null,
"cdna_length": 2058,
"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": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "n.219G>T",
"hgvs_p": null,
"transcript": "ENST00000486981.1",
"protein_id": null,
"transcript_support_level": 4,
"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": 581,
"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": 1,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "n.3093G>T",
"hgvs_p": null,
"transcript": "ENST00000489147.1",
"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": 3383,
"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": 12,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"hgvs_c": "n.1026G>T",
"hgvs_p": null,
"transcript": "XR_922903.3",
"protein_id": null,
"transcript_support_level": null,
"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": 1389,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "HIBCH",
"gene_hgnc_id": 4908,
"dbsnp": "rs786204004",
"frequency_reference_population": 6.863701e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 6.8637e-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": 0.8300326466560364,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.05999999865889549,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.801,
"revel_prediction": "Pathogenic",
"alphamissense_score": 0.7967,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.33,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 5.91,
"phylop100way_prediction": "Uncertain_significance",
"spliceai_max_score": 0.06,
"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": 5,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,PM5,PP3",
"acmg_by_gene": [
{
"score": 5,
"benign_score": 0,
"pathogenic_score": 5,
"criteria": [
"PM2",
"PM5",
"PP3"
],
"verdict": "Uncertain_significance",
"transcript": "ENST00000359678.10",
"gene_symbol": "HIBCH",
"hgnc_id": 4908,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.950G>T",
"hgvs_p": "p.Gly317Val"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}