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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: X-10459700-C-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=X&pos=10459700&ref=C&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "X",
"pos": 10459700,
"ref": "C",
"alt": "G",
"effect": "missense_variant",
"transcript": "ENST00000317552.9",
"consequences": [
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "NM_000381.4",
"protein_id": "NP_000372.1",
"transcript_support_level": null,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1745,
"cdna_end": null,
"cdna_length": 6168,
"mane_select": "ENST00000317552.9",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "ENST00000317552.9",
"protein_id": "ENSP00000312678.4",
"transcript_support_level": 1,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1745,
"cdna_end": null,
"cdna_length": 6168,
"mane_select": "NM_000381.4",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "ENST00000380779.5",
"protein_id": "ENSP00000370156.1",
"transcript_support_level": 1,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1621,
"cdna_end": null,
"cdna_length": 6044,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "ENST00000380780.5",
"protein_id": "ENSP00000370157.1",
"transcript_support_level": 1,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1772,
"cdna_end": null,
"cdna_length": 6195,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "ENST00000380787.5",
"protein_id": "ENSP00000370164.1",
"transcript_support_level": 1,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1550,
"cdna_end": null,
"cdna_length": 5973,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "ENST00000380782.6",
"protein_id": "ENSP00000370159.1",
"transcript_support_level": 1,
"aa_start": 465,
"aa_end": null,
"aa_length": 552,
"cds_start": 1393,
"cds_end": null,
"cds_length": 1659,
"cdna_start": 1579,
"cdna_end": null,
"cdna_length": 3352,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1546G>C",
"hgvs_p": "p.Ala516Pro",
"transcript": "ENST00000675073.1",
"protein_id": "ENSP00000501707.1",
"transcript_support_level": null,
"aa_start": 516,
"aa_end": null,
"aa_length": 718,
"cds_start": 1546,
"cds_end": null,
"cds_length": 2157,
"cdna_start": 1602,
"cdna_end": null,
"cdna_length": 2369,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "NM_001098624.2",
"protein_id": "NP_001092094.1",
"transcript_support_level": null,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1724,
"cdna_end": null,
"cdna_length": 6393,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "NM_001193277.1",
"protein_id": "NP_001180206.1",
"transcript_support_level": null,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1583,
"cdna_end": null,
"cdna_length": 6252,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "NM_001347733.2",
"protein_id": "NP_001334662.1",
"transcript_support_level": null,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1823,
"cdna_end": null,
"cdna_length": 6492,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "NM_033290.4",
"protein_id": "NP_150632.1",
"transcript_support_level": null,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1579,
"cdna_end": null,
"cdna_length": 6248,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "ENST00000380785.5",
"protein_id": "ENSP00000370162.1",
"transcript_support_level": 2,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1669,
"cdna_end": null,
"cdna_length": 6092,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "ENST00000413894.6",
"protein_id": "ENSP00000391154.2",
"transcript_support_level": 5,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1672,
"cdna_end": null,
"cdna_length": 6095,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro",
"transcript": "ENST00000453318.6",
"protein_id": "ENSP00000414521.2",
"transcript_support_level": 5,
"aa_start": 465,
"aa_end": null,
"aa_length": 667,
"cds_start": 1393,
"cds_end": null,
"cds_length": 2004,
"cdna_start": 1724,
"cdna_end": null,
"cdna_length": 6393,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"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": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1285G>C",
"hgvs_p": "p.Ala429Pro",
"transcript": "ENST00000691943.1",
"protein_id": "ENSP00000508663.1",
"transcript_support_level": null,
"aa_start": 429,
"aa_end": null,
"aa_length": 631,
"cds_start": 1285,
"cds_end": null,
"cds_length": 1896,
"cdna_start": 1594,
"cdna_end": null,
"cdna_length": 3436,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1279G>C",
"hgvs_p": "p.Ala427Pro",
"transcript": "NM_033289.2",
"protein_id": "NP_150631.1",
"transcript_support_level": null,
"aa_start": 427,
"aa_end": null,
"aa_length": 629,
"cds_start": 1279,
"cds_end": null,
"cds_length": 1890,
"cdna_start": 1631,
"cdna_end": null,
"cdna_length": 6300,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1279G>C",
"hgvs_p": "p.Ala427Pro",
"transcript": "ENST00000689773.1",
"protein_id": "ENSP00000509925.1",
"transcript_support_level": null,
"aa_start": 427,
"aa_end": null,
"aa_length": 629,
"cds_start": 1279,
"cds_end": null,
"cds_length": 1890,
"cdna_start": 1610,
"cdna_end": null,
"cdna_length": 3452,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1279G>C",
"hgvs_p": "p.Ala427Pro",
"transcript": "ENST00000690004.1",
"protein_id": "ENSP00000509730.1",
"transcript_support_level": null,
"aa_start": 427,
"aa_end": null,
"aa_length": 629,
"cds_start": 1279,
"cds_end": null,
"cds_length": 1890,
"cdna_start": 1631,
"cdna_end": null,
"cdna_length": 3473,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "A",
"aa_alt": "P",
"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": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.526G>C",
"hgvs_p": "p.Ala176Pro",
"transcript": "ENST00000674917.1",
"protein_id": "ENSP00000502171.1",
"transcript_support_level": null,
"aa_start": 176,
"aa_end": null,
"aa_length": 370,
"cds_start": 526,
"cds_end": null,
"cds_length": 1115,
"cdna_start": 776,
"cdna_end": null,
"cdna_length": 1365,
"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": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "n.343G>C",
"hgvs_p": null,
"transcript": "ENST00000479925.1",
"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": 858,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"dbsnp": "rs1556004366",
"frequency_reference_population": null,
"hom_count_reference_population": 0,
"allele_count_reference_population": 0,
"gnomad_exomes_af": null,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": null,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": null,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.9190129041671753,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.7,
"revel_prediction": "Pathogenic",
"alphamissense_score": 0.9971,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.41,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 7.412,
"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": 6,
"acmg_classification": "Likely_pathogenic",
"acmg_criteria": "PM2,PP3_Moderate,PP5_Moderate",
"acmg_by_gene": [
{
"score": 6,
"benign_score": 0,
"pathogenic_score": 6,
"criteria": [
"PM2",
"PP3_Moderate",
"PP5_Moderate"
],
"verdict": "Likely_pathogenic",
"transcript": "ENST00000317552.9",
"gene_symbol": "MID1",
"hgnc_id": 7095,
"effects": [
"missense_variant"
],
"inheritance_mode": "XL",
"hgvs_c": "c.1393G>C",
"hgvs_p": "p.Ala465Pro"
}
],
"clinvar_disease": "X-linked Opitz G/BBB syndrome",
"clinvar_classification": "Pathogenic",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "P:1",
"phenotype_combined": "X-linked Opitz G/BBB syndrome",
"pathogenicity_classification_combined": "Pathogenic",
"custom_annotations": null
}
],
"message": null
}