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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: 1-1665881-G-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=1665881&ref=G&alt=T&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 4,
"criteria": [
"PM2",
"BP4_Strong"
],
"effects": [
"missense_variant"
],
"gene_symbol": "SLC35E2B",
"hgnc_id": 33941,
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"inheritance_mode": "AR",
"pathogenic_score": 2,
"score": -2,
"transcript": "NM_001110781.3",
"verdict": "Likely_benign"
}
],
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong",
"acmg_score": -2,
"allele_count_reference_population": 2,
"alphamissense_prediction": null,
"alphamissense_score": 0.0777,
"alt": "T",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Benign",
"bayesdelnoaf_score": -0.56,
"chr": "1",
"clinvar_classification": "",
"clinvar_disease": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"computational_prediction_selected": "Benign",
"computational_score_selected": 0.04349026083946228,
"computational_source_selected": "MetaRNN",
"consequences": [
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6434,
"cdna_start": 2031,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 10,
"exon_rank": 10,
"exon_rank_end": null,
"feature": "NM_001290264.2",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000617444.5",
"protein_coding": true,
"protein_id": "NP_001277193.1",
"strand": false,
"transcript": "NM_001290264.2",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 6434,
"cdna_start": 2031,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 10,
"exon_rank": 10,
"exon_rank_end": null,
"feature": "ENST00000617444.5",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_001290264.2",
"protein_coding": true,
"protein_id": "ENSP00000481694.1",
"strand": false,
"transcript": "ENST00000617444.5",
"transcript_support_level": 1
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": 246,
"aa_ref": null,
"aa_start": null,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 2156,
"cdna_start": null,
"cds_end": null,
"cds_length": 741,
"cds_start": null,
"consequences": [
"intron_variant"
],
"exon_count": 7,
"exon_rank": null,
"exon_rank_end": null,
"feature": "ENST00000614300.4",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.732+2446C>A",
"hgvs_p": null,
"intron_rank": 6,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000478733.1",
"strand": false,
"transcript": "ENST00000614300.4",
"transcript_support_level": 1
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 460,
"aa_ref": "H",
"aa_start": 428,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3058,
"cdna_start": 1467,
"cds_end": null,
"cds_length": 1383,
"cds_start": 1284,
"consequences": [
"missense_variant"
],
"exon_count": 9,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "ENST00000911900.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1284C>A",
"hgvs_p": "p.His428Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000581959.1",
"strand": false,
"transcript": "ENST00000911900.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 6016,
"cdna_start": 1613,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 9,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "NM_001110781.3",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001104251.1",
"strand": false,
"transcript": "NM_001110781.3",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5948,
"cdna_start": 1546,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 9,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "ENST00000611123.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000484635.1",
"strand": false,
"transcript": "ENST00000611123.1",
"transcript_support_level": 2
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5794,
"cdna_start": 1391,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 9,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "ENST00000904337.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000574396.1",
"strand": false,
"transcript": "ENST00000904337.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5802,
"cdna_start": 1401,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 9,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "ENST00000904338.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000574397.1",
"strand": false,
"transcript": "ENST00000904338.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3379,
"cdna_start": 1782,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 9,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "ENST00000904339.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000574398.1",
"strand": false,
"transcript": "ENST00000904339.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3076,
"cdna_start": 1487,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 9,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "ENST00000904340.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000574399.1",
"strand": false,
"transcript": "ENST00000904340.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5923,
"cdna_start": 1520,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 10,
"exon_rank": 10,
"exon_rank_end": null,
"feature": "ENST00000911898.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000581957.1",
"strand": false,
"transcript": "ENST00000911898.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5913,
"cdna_start": 1510,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 9,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "ENST00000911901.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000581960.1",
"strand": false,
"transcript": "ENST00000911901.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 405,
"aa_ref": "H",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3434,
"cdna_start": 3094,
"cds_end": null,
"cds_length": 1218,
"cds_start": 1119,
"consequences": [
"missense_variant"
],
"exon_count": 9,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "ENST00000956985.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1119C>A",
"hgvs_p": "p.His373Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000627044.1",
"strand": false,
"transcript": "ENST00000956985.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 385,
"aa_ref": "H",
"aa_start": 353,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5487,
"cdna_start": 1350,
"cds_end": null,
"cds_length": 1158,
"cds_start": 1059,
"consequences": [
"missense_variant"
],
"exon_count": 8,
"exon_rank": 8,
"exon_rank_end": null,
"feature": "ENST00000904336.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1059C>A",
"hgvs_p": "p.His353Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000574395.1",
"strand": false,
"transcript": "ENST00000904336.1",
"transcript_support_level": null
},
{
"aa_alt": "Q",
"aa_end": null,
"aa_length": 366,
"aa_ref": "H",
"aa_start": 334,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 5011,
"cdna_start": 1718,
"cds_end": null,
"cds_length": 1101,
"cds_start": 1002,
"consequences": [
"missense_variant"
],
"exon_count": 9,
"exon_rank": 9,
"exon_rank_end": null,
"feature": "ENST00000911899.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "c.1002C>A",
"hgvs_p": "p.His334Gln",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000581958.1",
"strand": false,
"transcript": "ENST00000911899.1",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "retained_intron",
"canonical": false,
"cdna_end": null,
"cdna_length": 2860,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 3,
"exon_rank": 3,
"exon_rank_end": null,
"feature": "ENST00000480991.1",
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"hgvs_c": "n.761C>A",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000480991.1",
"transcript_support_level": 2
}
],
"custom_annotations": null,
"dbscsnv_ada_prediction": null,
"dbscsnv_ada_score": null,
"dbsnp": "rs780556613",
"effect": "missense_variant",
"frequency_reference_population": 0.0000014297847,
"gene_hgnc_id": 33941,
"gene_symbol": "SLC35E2B",
"gnomad_exomes_ac": 2,
"gnomad_exomes_af": 0.00000142978,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_ac": null,
"gnomad_genomes_af": null,
"gnomad_genomes_homalt": null,
"gnomad_mito_heteroplasmic": null,
"gnomad_mito_homoplasmic": null,
"hom_count_reference_population": 0,
"mitotip_prediction": null,
"mitotip_score": null,
"pathogenicity_classification_combined": null,
"phenotype_combined": null,
"phylop100way_prediction": "Benign",
"phylop100way_score": 0.586,
"pos": 1665881,
"ref": "G",
"revel_prediction": "Benign",
"revel_score": 0.035,
"splice_prediction_selected": "Benign",
"splice_score_selected": 0,
"splice_source_selected": "max_spliceai",
"spliceai_max_prediction": "Benign",
"spliceai_max_score": 0,
"transcript": "NM_001110781.3"
}
]
}