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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: 14-69458523-G-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=14&pos=69458523&ref=G&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "14",
"pos": 69458523,
"ref": "G",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_018375.5",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.854G>T",
"hgvs_p": "p.Arg285Leu",
"transcript": "NM_018375.5",
"protein_id": "NP_060845.2",
"transcript_support_level": null,
"aa_start": 285,
"aa_end": null,
"aa_length": 307,
"cds_start": 854,
"cds_end": null,
"cds_length": 924,
"cdna_start": 1532,
"cdna_end": null,
"cdna_length": 5399,
"mane_select": "ENST00000336643.10",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_018375.5"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.854G>T",
"hgvs_p": "p.Arg285Leu",
"transcript": "ENST00000336643.10",
"protein_id": "ENSP00000336887.5",
"transcript_support_level": 1,
"aa_start": 285,
"aa_end": null,
"aa_length": 307,
"cds_start": 854,
"cds_end": null,
"cds_length": 924,
"cdna_start": 1532,
"cdna_end": null,
"cdna_length": 5399,
"mane_select": "NM_018375.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000336643.10"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.785G>T",
"hgvs_p": "p.Arg262Leu",
"transcript": "ENST00000557046.1",
"protein_id": "ENSP00000451833.1",
"transcript_support_level": 1,
"aa_start": 262,
"aa_end": null,
"aa_length": 284,
"cds_start": 785,
"cds_end": null,
"cds_length": 855,
"cdna_start": 785,
"cdna_end": null,
"cdna_length": 855,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000557046.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": 6,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.693+2657G>T",
"hgvs_p": null,
"transcript": "ENST00000556605.5",
"protein_id": "ENSP00000452385.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 232,
"cds_start": null,
"cds_end": null,
"cds_length": 699,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2065,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000556605.5"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.785G>T",
"hgvs_p": "p.Arg262Leu",
"transcript": "NM_001252148.2",
"protein_id": "NP_001239077.1",
"transcript_support_level": null,
"aa_start": 262,
"aa_end": null,
"aa_length": 284,
"cds_start": 785,
"cds_end": null,
"cds_length": 855,
"cdna_start": 1463,
"cdna_end": null,
"cdna_length": 5330,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001252148.2"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.656G>T",
"hgvs_p": "p.Arg219Leu",
"transcript": "NM_001330185.2",
"protein_id": "NP_001317114.1",
"transcript_support_level": null,
"aa_start": 219,
"aa_end": null,
"aa_length": 241,
"cds_start": 656,
"cds_end": null,
"cds_length": 726,
"cdna_start": 1334,
"cdna_end": null,
"cdna_length": 5201,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001330185.2"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.656G>T",
"hgvs_p": "p.Arg219Leu",
"transcript": "ENST00000031146.8",
"protein_id": "ENSP00000468864.1",
"transcript_support_level": 5,
"aa_start": 219,
"aa_end": null,
"aa_length": 241,
"cds_start": 656,
"cds_end": null,
"cds_length": 726,
"cdna_start": 1334,
"cdna_end": null,
"cdna_length": 5192,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000031146.8"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.587G>T",
"hgvs_p": "p.Arg196Leu",
"transcript": "ENST00000893627.1",
"protein_id": "ENSP00000563686.1",
"transcript_support_level": null,
"aa_start": 196,
"aa_end": null,
"aa_length": 218,
"cds_start": 587,
"cds_end": null,
"cds_length": 657,
"cdna_start": 1265,
"cdna_end": null,
"cdna_length": 5132,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000893627.1"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.500G>T",
"hgvs_p": "p.Arg167Leu",
"transcript": "NM_001252151.2",
"protein_id": "NP_001239080.1",
"transcript_support_level": null,
"aa_start": 167,
"aa_end": null,
"aa_length": 189,
"cds_start": 500,
"cds_end": null,
"cds_length": 570,
"cdna_start": 978,
"cdna_end": null,
"cdna_length": 4845,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001252151.2"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.500G>T",
"hgvs_p": "p.Arg167Leu",
"transcript": "NM_001252152.2",
"protein_id": "NP_001239081.1",
"transcript_support_level": null,
"aa_start": 167,
"aa_end": null,
"aa_length": 189,
"cds_start": 500,
"cds_end": null,
"cds_length": 570,
"cdna_start": 966,
"cdna_end": null,
"cdna_length": 4833,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001252152.2"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.500G>T",
"hgvs_p": "p.Arg167Leu",
"transcript": "XM_024449648.2",
"protein_id": "XP_024305416.1",
"transcript_support_level": null,
"aa_start": 167,
"aa_end": null,
"aa_length": 189,
"cds_start": 500,
"cds_end": null,
"cds_length": 570,
"cdna_start": 825,
"cdna_end": null,
"cdna_length": 4692,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_024449648.2"
},
{
"aa_ref": "R",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.431G>T",
"hgvs_p": "p.Arg144Leu",
"transcript": "XM_047431550.1",
"protein_id": "XP_047287506.1",
"transcript_support_level": null,
"aa_start": 144,
"aa_end": null,
"aa_length": 166,
"cds_start": 431,
"cds_end": null,
"cds_length": 501,
"cdna_start": 756,
"cdna_end": null,
"cdna_length": 4623,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047431550.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": 6,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "c.693+2657G>T",
"hgvs_p": null,
"transcript": "NM_001252150.2",
"protein_id": "NP_001239079.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 232,
"cds_start": null,
"cds_end": null,
"cds_length": 699,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2065,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001252150.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "n.960G>T",
"hgvs_p": null,
"transcript": "ENST00000538956.5",
"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": 1264,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000538956.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "n.493G>T",
"hgvs_p": null,
"transcript": "ENST00000554023.1",
"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": 513,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000554023.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "n.976G>T",
"hgvs_p": null,
"transcript": "ENST00000555245.5",
"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": 1531,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000555245.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "n.854G>T",
"hgvs_p": null,
"transcript": "ENST00000555840.5",
"protein_id": "ENSP00000450639.1",
"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": 2377,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000555840.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "n.*716G>T",
"hgvs_p": null,
"transcript": "ENST00000628474.2",
"protein_id": "ENSP00000486416.1",
"transcript_support_level": 5,
"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": 3701,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000628474.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"hgvs_c": "n.*716G>T",
"hgvs_p": null,
"transcript": "ENST00000628474.2",
"protein_id": "ENSP00000486416.1",
"transcript_support_level": 5,
"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": 3701,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000628474.2"
}
],
"gene_symbol": "SLC39A9",
"gene_hgnc_id": 20182,
"dbsnp": "rs376565540",
"frequency_reference_population": 0.000009293231,
"hom_count_reference_population": 0,
"allele_count_reference_population": 15,
"gnomad_exomes_af": 0.00000957683,
"gnomad_genomes_af": 0.00000656961,
"gnomad_exomes_ac": 14,
"gnomad_genomes_ac": 1,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.13314923644065857,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.217,
"revel_prediction": "Benign",
"alphamissense_score": 0.2158,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.24,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 6.046,
"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": 0,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,BP4_Moderate",
"acmg_by_gene": [
{
"score": 0,
"benign_score": 2,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "NM_018375.5",
"gene_symbol": "SLC39A9",
"hgnc_id": 20182,
"effects": [
"missense_variant"
],
"inheritance_mode": "",
"hgvs_c": "c.854G>T",
"hgvs_p": "p.Arg285Leu"
}
],
"clinvar_disease": "not specified",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "US:1",
"phenotype_combined": "not specified",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}