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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: 20-48998348-G-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=20&pos=48998348&ref=G&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "20",
"pos": 48998348,
"ref": "G",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_006420.3",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "c.3275G>T",
"hgvs_p": "p.Arg1092Leu",
"transcript": "NM_006420.3",
"protein_id": "NP_006411.2",
"transcript_support_level": null,
"aa_start": 1092,
"aa_end": null,
"aa_length": 1785,
"cds_start": 3275,
"cds_end": null,
"cds_length": 5358,
"cdna_start": 3454,
"cdna_end": null,
"cdna_length": 9031,
"mane_select": "ENST00000371917.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_006420.3"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "c.3275G>T",
"hgvs_p": "p.Arg1092Leu",
"transcript": "ENST00000371917.5",
"protein_id": "ENSP00000360985.4",
"transcript_support_level": 1,
"aa_start": 1092,
"aa_end": null,
"aa_length": 1785,
"cds_start": 3275,
"cds_end": null,
"cds_length": 5358,
"cdna_start": 3454,
"cdna_end": null,
"cdna_length": 9031,
"mane_select": "NM_006420.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000371917.5"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "c.3272G>T",
"hgvs_p": "p.Arg1091Leu",
"transcript": "NM_001410846.1",
"protein_id": "NP_001397775.1",
"transcript_support_level": null,
"aa_start": 1091,
"aa_end": null,
"aa_length": 1784,
"cds_start": 3272,
"cds_end": null,
"cds_length": 5355,
"cdna_start": 3451,
"cdna_end": null,
"cdna_length": 9028,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001410846.1"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "c.3272G>T",
"hgvs_p": "p.Arg1091Leu",
"transcript": "ENST00000679436.1",
"protein_id": "ENSP00000504888.1",
"transcript_support_level": null,
"aa_start": 1091,
"aa_end": null,
"aa_length": 1784,
"cds_start": 3272,
"cds_end": null,
"cds_length": 5355,
"cdna_start": 3272,
"cdna_end": null,
"cdna_length": 8828,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000679436.1"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "c.3269G>T",
"hgvs_p": "p.Arg1090Leu",
"transcript": "ENST00000939861.1",
"protein_id": "ENSP00000609920.1",
"transcript_support_level": null,
"aa_start": 1090,
"aa_end": null,
"aa_length": 1783,
"cds_start": 3269,
"cds_end": null,
"cds_length": 5352,
"cdna_start": 3396,
"cdna_end": null,
"cdna_length": 8973,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000939861.1"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 38,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "c.3275G>T",
"hgvs_p": "p.Arg1092Leu",
"transcript": "ENST00000681021.1",
"protein_id": "ENSP00000505972.1",
"transcript_support_level": null,
"aa_start": 1092,
"aa_end": null,
"aa_length": 1728,
"cds_start": 3275,
"cds_end": null,
"cds_length": 5187,
"cdna_start": 3275,
"cdna_end": null,
"cdna_length": 6583,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000681021.1"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 37,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "c.3035G>T",
"hgvs_p": "p.Arg1012Leu",
"transcript": "ENST00000963182.1",
"protein_id": "ENSP00000633241.1",
"transcript_support_level": null,
"aa_start": 1012,
"aa_end": null,
"aa_length": 1705,
"cds_start": 3035,
"cds_end": null,
"cds_length": 5118,
"cdna_start": 3197,
"cdna_end": null,
"cdna_length": 8069,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000963182.1"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 37,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "c.2711G>T",
"hgvs_p": "p.Arg904Leu",
"transcript": "XM_047439832.1",
"protein_id": "XP_047295788.1",
"transcript_support_level": null,
"aa_start": 904,
"aa_end": null,
"aa_length": 1597,
"cds_start": 2711,
"cds_end": null,
"cds_length": 4794,
"cdna_start": 3299,
"cdna_end": null,
"cdna_length": 8876,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047439832.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"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": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "n.147G>T",
"hgvs_p": null,
"transcript": "ENST00000493140.1",
"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": 245,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000493140.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 34,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "n.2832G>T",
"hgvs_p": null,
"transcript": "ENST00000679542.1",
"protein_id": null,
"transcript_support_level": null,
"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": 8520,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000679542.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 30,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "n.2832G>T",
"hgvs_p": null,
"transcript": "ENST00000680635.1",
"protein_id": null,
"transcript_support_level": null,
"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": 4364,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000680635.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 38,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "n.*2103G>T",
"hgvs_p": null,
"transcript": "ENST00000680871.1",
"protein_id": "ENSP00000505042.1",
"transcript_support_level": null,
"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": 5206,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000680871.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 37,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "n.*2952G>T",
"hgvs_p": null,
"transcript": "ENST00000681399.1",
"protein_id": "ENSP00000506363.1",
"transcript_support_level": null,
"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": 8731,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000681399.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 38,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "n.*1471G>T",
"hgvs_p": null,
"transcript": "ENST00000681656.1",
"protein_id": "ENSP00000505638.1",
"transcript_support_level": null,
"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": 5249,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000681656.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 38,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "n.3275G>T",
"hgvs_p": null,
"transcript": "ENST00000681885.1",
"protein_id": "ENSP00000505737.1",
"transcript_support_level": null,
"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": 5660,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000681885.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 38,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "n.*2103G>T",
"hgvs_p": null,
"transcript": "ENST00000680871.1",
"protein_id": "ENSP00000505042.1",
"transcript_support_level": null,
"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": 5206,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000680871.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 37,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "n.*2952G>T",
"hgvs_p": null,
"transcript": "ENST00000681399.1",
"protein_id": "ENSP00000506363.1",
"transcript_support_level": null,
"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": 8731,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000681399.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 38,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"hgvs_c": "n.*1471G>T",
"hgvs_p": null,
"transcript": "ENST00000681656.1",
"protein_id": "ENSP00000505638.1",
"transcript_support_level": null,
"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": 5249,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000681656.1"
}
],
"gene_symbol": "ARFGEF2",
"gene_hgnc_id": 15853,
"dbsnp": "rs151045115",
"frequency_reference_population": 6.8404694e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 6.84047e-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": 0.850529670715332,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.029999999329447746,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.439,
"revel_prediction": "Uncertain_significance",
"alphamissense_score": 0.3627,
"alphamissense_prediction": "Uncertain_significance",
"bayesdelnoaf_score": 0.07,
"bayesdelnoaf_prediction": "Uncertain_significance",
"phylop100way_score": 6.889,
"phylop100way_prediction": "Uncertain_significance",
"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": 4,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,PP3_Moderate",
"acmg_by_gene": [
{
"score": 4,
"benign_score": 0,
"pathogenic_score": 4,
"criteria": [
"PM2",
"PP3_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "NM_006420.3",
"gene_symbol": "ARFGEF2",
"hgnc_id": 15853,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR,AD",
"hgvs_c": "c.3275G>T",
"hgvs_p": "p.Arg1092Leu"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}