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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: 19-29708291-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=19&pos=29708291&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "19",
"pos": 29708291,
"ref": "G",
"alt": "A",
"effect": "synonymous_variant",
"transcript": "ENST00000323670.14",
"consequences": [
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val",
"transcript": "NM_031448.6",
"protein_id": "NP_113636.2",
"transcript_support_level": null,
"aa_start": 41,
"aa_end": null,
"aa_length": 141,
"cds_start": 123,
"cds_end": null,
"cds_length": 426,
"cdna_start": 270,
"cdna_end": null,
"cdna_length": 4348,
"mane_select": "ENST00000323670.14",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val",
"transcript": "ENST00000323670.14",
"protein_id": "ENSP00000313332.9",
"transcript_support_level": 2,
"aa_start": 41,
"aa_end": null,
"aa_length": 141,
"cds_start": 123,
"cds_end": null,
"cds_length": 426,
"cdna_start": 270,
"cdna_end": null,
"cdna_length": 4348,
"mane_select": "NM_031448.6",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val",
"transcript": "ENST00000592153.5",
"protein_id": "ENSP00000467117.1",
"transcript_support_level": 1,
"aa_start": 41,
"aa_end": null,
"aa_length": 107,
"cds_start": 123,
"cds_end": null,
"cds_length": 324,
"cdna_start": 233,
"cdna_end": null,
"cdna_length": 1504,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val",
"transcript": "ENST00000591243.1",
"protein_id": "ENSP00000467516.1",
"transcript_support_level": 1,
"aa_start": 41,
"aa_end": null,
"aa_length": 105,
"cds_start": 123,
"cds_end": null,
"cds_length": 319,
"cdna_start": 350,
"cdna_end": null,
"cdna_length": 546,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.-32-5314C>T",
"hgvs_p": null,
"transcript": "ENST00000392276.1",
"protein_id": "ENSP00000376102.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 77,
"cds_start": -4,
"cds_end": null,
"cds_length": 234,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1912,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"5_prime_UTR_premature_start_codon_gain_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.-191C>T",
"hgvs_p": null,
"transcript": "NM_001282931.3",
"protein_id": "NP_001269860.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 77,
"cds_start": -4,
"cds_end": null,
"cds_length": 234,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 4469,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"5_prime_UTR_premature_start_codon_gain_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.-3050C>T",
"hgvs_p": null,
"transcript": "XM_047439497.1",
"protein_id": "XP_047295453.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 77,
"cds_start": -4,
"cds_end": null,
"cds_length": 234,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 7459,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val",
"transcript": "NM_001031726.4",
"protein_id": "NP_001026896.3",
"transcript_support_level": null,
"aa_start": 41,
"aa_end": null,
"aa_length": 141,
"cds_start": 123,
"cds_end": null,
"cds_length": 426,
"cdna_start": 287,
"cdna_end": null,
"cdna_length": 4265,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val",
"transcript": "NM_001256047.2",
"protein_id": "NP_001242976.1",
"transcript_support_level": null,
"aa_start": 41,
"aa_end": null,
"aa_length": 141,
"cds_start": 123,
"cds_end": null,
"cds_length": 426,
"cdna_start": 360,
"cdna_end": null,
"cdna_length": 4438,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val",
"transcript": "ENST00000623113.3",
"protein_id": "ENSP00000485413.2",
"transcript_support_level": 2,
"aa_start": 41,
"aa_end": null,
"aa_length": 141,
"cds_start": 123,
"cds_end": null,
"cds_length": 426,
"cdna_start": 287,
"cdna_end": null,
"cdna_length": 3726,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val",
"transcript": "ENST00000614091.5",
"protein_id": "ENSP00000482097.2",
"transcript_support_level": 4,
"aa_start": 41,
"aa_end": null,
"aa_length": 115,
"cds_start": 123,
"cds_end": null,
"cds_length": 349,
"cdna_start": 360,
"cdna_end": null,
"cdna_length": 586,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val",
"transcript": "NM_001256046.3",
"protein_id": "NP_001242975.1",
"transcript_support_level": null,
"aa_start": 41,
"aa_end": null,
"aa_length": 107,
"cds_start": 123,
"cds_end": null,
"cds_length": 324,
"cdna_start": 270,
"cdna_end": null,
"cdna_length": 4293,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.285C>T",
"hgvs_p": "p.Val95Val",
"transcript": "XM_024451734.2",
"protein_id": "XP_024307502.1",
"transcript_support_level": null,
"aa_start": 95,
"aa_end": null,
"aa_length": 195,
"cds_start": 285,
"cds_end": null,
"cds_length": 588,
"cdna_start": 6082,
"cdna_end": null,
"cdna_length": 10211,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.285C>T",
"hgvs_p": "p.Val95Val",
"transcript": "XM_047439496.1",
"protein_id": "XP_047295452.1",
"transcript_support_level": null,
"aa_start": 95,
"aa_end": null,
"aa_length": 195,
"cds_start": 285,
"cds_end": null,
"cds_length": 588,
"cdna_start": 5962,
"cdna_end": null,
"cdna_length": 10091,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "V",
"aa_alt": "V",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val",
"transcript": "XM_024451735.2",
"protein_id": "XP_024307503.1",
"transcript_support_level": null,
"aa_start": 41,
"aa_end": null,
"aa_length": 141,
"cds_start": 123,
"cds_end": null,
"cds_length": 426,
"cdna_start": 1987,
"cdna_end": null,
"cdna_length": 6116,
"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": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "n.123C>T",
"hgvs_p": null,
"transcript": "ENST00000342680.5",
"protein_id": "ENSP00000345497.5",
"transcript_support_level": 5,
"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": 578,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"5_prime_UTR_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.-191C>T",
"hgvs_p": null,
"transcript": "NM_001282931.3",
"protein_id": "NP_001269860.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 77,
"cds_start": -4,
"cds_end": null,
"cds_length": 234,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 4469,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"5_prime_UTR_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.-3050C>T",
"hgvs_p": null,
"transcript": "XM_047439497.1",
"protein_id": "XP_047295453.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 77,
"cds_start": -4,
"cds_end": null,
"cds_length": 234,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 7459,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.-32-5314C>T",
"hgvs_p": null,
"transcript": "NM_001282929.1",
"protein_id": "NP_001269858.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 77,
"cds_start": -4,
"cds_end": null,
"cds_length": 234,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 4242,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.-32-5314C>T",
"hgvs_p": null,
"transcript": "NM_001282930.3",
"protein_id": "NP_001269859.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 77,
"cds_start": -4,
"cds_end": null,
"cds_length": 234,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 4178,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"hgvs_c": "c.-32-5314C>T",
"hgvs_p": null,
"transcript": "ENST00000392275.1",
"protein_id": "ENSP00000507573.1",
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": 77,
"cds_start": -4,
"cds_end": null,
"cds_length": 234,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1188,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "C19orf12",
"gene_hgnc_id": 25443,
"dbsnp": "rs374520604",
"frequency_reference_population": 0.000006160004,
"hom_count_reference_population": 0,
"allele_count_reference_population": 9,
"gnomad_exomes_af": 0.00000616,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 9,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.8500000238418579,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0.10000000149011612,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.85,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -2.885,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.1,
"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": -7,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Moderate,BP7",
"acmg_by_gene": [
{
"score": -7,
"benign_score": 7,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Moderate",
"BP7"
],
"verdict": "Benign",
"transcript": "ENST00000323670.14",
"gene_symbol": "C19orf12",
"hgnc_id": 25443,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AR,SD,AD",
"hgvs_c": "c.123C>T",
"hgvs_p": "p.Val41Val"
}
],
"clinvar_disease": "Hereditary spastic paraplegia 43",
"clinvar_classification": "Likely benign",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "LB:1",
"phenotype_combined": "Hereditary spastic paraplegia 43",
"pathogenicity_classification_combined": "Likely benign",
"custom_annotations": null
}
],
"message": null
}