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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-10449607-T-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=X&pos=10449607&ref=T&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "X",
"pos": 10449607,
"ref": "T",
"alt": "C",
"effect": "missense_variant",
"transcript": "NM_000381.4",
"consequences": [
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "NM_000381.4",
"protein_id": "NP_000372.1",
"transcript_support_level": null,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000317552.9",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_000381.4"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "ENST00000317552.9",
"protein_id": "ENSP00000312678.4",
"transcript_support_level": 1,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_000381.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000317552.9"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "ENST00000380779.5",
"protein_id": "ENSP00000370156.1",
"transcript_support_level": 1,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000380779.5"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "ENST00000380780.5",
"protein_id": "ENSP00000370157.1",
"transcript_support_level": 1,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000380780.5"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "ENST00000380787.5",
"protein_id": "ENSP00000370164.1",
"transcript_support_level": 1,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000380787.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.*6A>G",
"hgvs_p": null,
"transcript": "ENST00000380782.6",
"protein_id": "ENSP00000370159.1",
"transcript_support_level": 1,
"aa_start": null,
"aa_end": null,
"aa_length": 552,
"cds_start": null,
"cds_end": null,
"cds_length": 1659,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000380782.6"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1918A>G",
"hgvs_p": "p.Asn640Asp",
"transcript": "ENST00000675073.1",
"protein_id": "ENSP00000501707.1",
"transcript_support_level": null,
"aa_start": 640,
"aa_end": null,
"aa_length": 718,
"cds_start": 1918,
"cds_end": null,
"cds_length": 2157,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000675073.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "NM_001098624.2",
"protein_id": "NP_001092094.1",
"transcript_support_level": null,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001098624.2"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "NM_001193277.1",
"protein_id": "NP_001180206.1",
"transcript_support_level": null,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001193277.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "NM_001347733.2",
"protein_id": "NP_001334662.1",
"transcript_support_level": null,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001347733.2"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "NM_033290.4",
"protein_id": "NP_150632.1",
"transcript_support_level": null,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_033290.4"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "ENST00000380785.5",
"protein_id": "ENSP00000370162.1",
"transcript_support_level": 2,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000380785.5"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "ENST00000413894.6",
"protein_id": "ENSP00000391154.2",
"transcript_support_level": 5,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000413894.6"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp",
"transcript": "ENST00000453318.6",
"protein_id": "ENSP00000414521.2",
"transcript_support_level": 5,
"aa_start": 589,
"aa_end": null,
"aa_length": 667,
"cds_start": 1765,
"cds_end": null,
"cds_length": 2004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000453318.6"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1657A>G",
"hgvs_p": "p.Asn553Asp",
"transcript": "ENST00000691943.1",
"protein_id": "ENSP00000508663.1",
"transcript_support_level": null,
"aa_start": 553,
"aa_end": null,
"aa_length": 631,
"cds_start": 1657,
"cds_end": null,
"cds_length": 1896,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000691943.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1651A>G",
"hgvs_p": "p.Asn551Asp",
"transcript": "NM_033289.2",
"protein_id": "NP_150631.1",
"transcript_support_level": null,
"aa_start": 551,
"aa_end": null,
"aa_length": 629,
"cds_start": 1651,
"cds_end": null,
"cds_length": 1890,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_033289.2"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1651A>G",
"hgvs_p": "p.Asn551Asp",
"transcript": "ENST00000689773.1",
"protein_id": "ENSP00000509925.1",
"transcript_support_level": null,
"aa_start": 551,
"aa_end": null,
"aa_length": 629,
"cds_start": 1651,
"cds_end": null,
"cds_length": 1890,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000689773.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.1651A>G",
"hgvs_p": "p.Asn551Asp",
"transcript": "ENST00000690004.1",
"protein_id": "ENSP00000509730.1",
"transcript_support_level": null,
"aa_start": 551,
"aa_end": null,
"aa_length": 629,
"cds_start": 1651,
"cds_end": null,
"cds_length": 1890,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000690004.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "c.898A>G",
"hgvs_p": "p.Asn300Asp",
"transcript": "ENST00000674917.1",
"protein_id": "ENSP00000502171.1",
"transcript_support_level": null,
"aa_start": 300,
"aa_end": null,
"aa_length": 370,
"cds_start": 898,
"cds_end": null,
"cds_length": 1115,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000674917.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"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": "MID1",
"gene_hgnc_id": 7095,
"hgvs_c": "n.715A>G",
"hgvs_p": null,
"transcript": "ENST00000479925.1",
"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": null,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000479925.1"
}
],
"gene_symbol": "MID1",
"gene_hgnc_id": 7095,
"dbsnp": "rs1556001939",
"frequency_reference_population": 0.0000054641278,
"hom_count_reference_population": 2,
"allele_count_reference_population": 6,
"gnomad_exomes_af": 0.00000546413,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 6,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.24026411771774292,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.066,
"revel_prediction": "Benign",
"alphamissense_score": 0.1659,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.63,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 5.771,
"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_benign",
"acmg_criteria": "BP4_Moderate,BS2",
"acmg_by_gene": [
{
"score": -6,
"benign_score": 6,
"pathogenic_score": 0,
"criteria": [
"BP4_Moderate",
"BS2"
],
"verdict": "Likely_benign",
"transcript": "NM_000381.4",
"gene_symbol": "MID1",
"hgnc_id": 7095,
"effects": [
"missense_variant"
],
"inheritance_mode": "XL",
"hgvs_c": "c.1765A>G",
"hgvs_p": "p.Asn589Asp"
}
],
"clinvar_disease": " agenesis of,Abnormal facial shape,Clinodactyly of the 5th finger,Corpus callosum,Hypertelorism,Low-set ears",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "US:1",
"phenotype_combined": "Corpus callosum, agenesis of;Low-set ears;Hypertelorism;Abnormal facial shape;Clinodactyly of the 5th finger",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}