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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: 2-20204237-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=20204237&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 20204237,
"ref": "G",
"alt": "A",
"effect": "missense_variant",
"transcript": "NM_002997.5",
"consequences": [
{
"aa_ref": "T",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.203C>T",
"hgvs_p": "p.Thr68Met",
"transcript": "NM_002997.5",
"protein_id": "NP_002988.4",
"transcript_support_level": null,
"aa_start": 68,
"aa_end": null,
"aa_length": 310,
"cds_start": 203,
"cds_end": null,
"cds_length": 933,
"cdna_start": 466,
"cdna_end": null,
"cdna_length": 3165,
"mane_select": "ENST00000254351.9",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_002997.5"
},
{
"aa_ref": "T",
"aa_alt": "M",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.203C>T",
"hgvs_p": "p.Thr68Met",
"transcript": "ENST00000254351.9",
"protein_id": "ENSP00000254351.4",
"transcript_support_level": 1,
"aa_start": 68,
"aa_end": null,
"aa_length": 310,
"cds_start": 203,
"cds_end": null,
"cds_length": 933,
"cdna_start": 466,
"cdna_end": null,
"cdna_length": 3165,
"mane_select": "NM_002997.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000254351.9"
},
{
"aa_ref": "T",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.203C>T",
"hgvs_p": "p.Thr68Met",
"transcript": "ENST00000403076.5",
"protein_id": "ENSP00000384613.1",
"transcript_support_level": 1,
"aa_start": 68,
"aa_end": null,
"aa_length": 169,
"cds_start": 203,
"cds_end": null,
"cds_length": 510,
"cdna_start": 432,
"cdna_end": null,
"cdna_length": 1523,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000403076.5"
},
{
"aa_ref": "T",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.203C>T",
"hgvs_p": "p.Thr68Met",
"transcript": "NM_001006946.2",
"protein_id": "NP_001006947.2",
"transcript_support_level": null,
"aa_start": 68,
"aa_end": null,
"aa_length": 310,
"cds_start": 203,
"cds_end": null,
"cds_length": 933,
"cdna_start": 636,
"cdna_end": null,
"cdna_length": 3335,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001006946.2"
},
{
"aa_ref": "T",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.203C>T",
"hgvs_p": "p.Thr68Met",
"transcript": "ENST00000381150.5",
"protein_id": "ENSP00000370542.1",
"transcript_support_level": 5,
"aa_start": 68,
"aa_end": null,
"aa_length": 310,
"cds_start": 203,
"cds_end": null,
"cds_length": 933,
"cdna_start": 594,
"cdna_end": null,
"cdna_length": 3291,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000381150.5"
},
{
"aa_ref": "T",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.197C>T",
"hgvs_p": "p.Thr66Met",
"transcript": "ENST00000917369.1",
"protein_id": "ENSP00000587428.1",
"transcript_support_level": null,
"aa_start": 66,
"aa_end": null,
"aa_length": 308,
"cds_start": 197,
"cds_end": null,
"cds_length": 927,
"cdna_start": 573,
"cdna_end": null,
"cdna_length": 2580,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000917369.1"
},
{
"aa_ref": "T",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.227C>T",
"hgvs_p": "p.Thr76Met",
"transcript": "ENST00000429035.1",
"protein_id": "ENSP00000400773.1",
"transcript_support_level": 3,
"aa_start": 76,
"aa_end": null,
"aa_length": 214,
"cds_start": 227,
"cds_end": null,
"cds_length": 646,
"cdna_start": 227,
"cdna_end": null,
"cdna_length": 646,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000429035.1"
},
{
"aa_ref": "T",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.275C>T",
"hgvs_p": "p.Thr92Met",
"transcript": "XM_005262620.5",
"protein_id": "XP_005262677.1",
"transcript_support_level": null,
"aa_start": 92,
"aa_end": null,
"aa_length": 334,
"cds_start": 275,
"cds_end": null,
"cds_length": 1005,
"cdna_start": 373,
"cdna_end": null,
"cdna_length": 3072,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_005262620.5"
},
{
"aa_ref": "T",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.188C>T",
"hgvs_p": "p.Thr63Met",
"transcript": "XM_005262621.3",
"protein_id": "XP_005262678.3",
"transcript_support_level": null,
"aa_start": 63,
"aa_end": null,
"aa_length": 305,
"cds_start": 188,
"cds_end": null,
"cds_length": 918,
"cdna_start": 225,
"cdna_end": null,
"cdna_length": 2924,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_005262621.3"
},
{
"aa_ref": "T",
"aa_alt": "M",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.149C>T",
"hgvs_p": "p.Thr50Met",
"transcript": "XM_005262622.3",
"protein_id": "XP_005262679.1",
"transcript_support_level": null,
"aa_start": 50,
"aa_end": null,
"aa_length": 292,
"cds_start": 149,
"cds_end": null,
"cds_length": 879,
"cdna_start": 339,
"cdna_end": null,
"cdna_length": 3038,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_005262622.3"
},
{
"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": 5,
"intron_rank": 2,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.149-33C>T",
"hgvs_p": null,
"transcript": "ENST00000852541.1",
"protein_id": "ENSP00000522600.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 281,
"cds_start": null,
"cds_end": null,
"cds_length": 846,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 3079,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000852541.1"
},
{
"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": 5,
"intron_rank": 2,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.143-33C>T",
"hgvs_p": null,
"transcript": "ENST00000852542.1",
"protein_id": "ENSP00000522601.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 279,
"cds_start": null,
"cds_end": null,
"cds_length": 840,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 3068,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000852542.1"
},
{
"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": 5,
"intron_rank": 2,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "c.149-339C>T",
"hgvs_p": null,
"transcript": "ENST00000970834.1",
"protein_id": "ENSP00000640893.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 179,
"cds_start": null,
"cds_end": null,
"cds_length": 540,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2009,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000970834.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "n.*192C>T",
"hgvs_p": null,
"transcript": "ENST00000447124.1",
"protein_id": "ENSP00000390201.1",
"transcript_support_level": 4,
"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": 591,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000447124.1"
},
{
"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": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "n.323C>T",
"hgvs_p": null,
"transcript": "ENST00000482879.5",
"protein_id": null,
"transcript_support_level": 4,
"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": 558,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000482879.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"hgvs_c": "n.*192C>T",
"hgvs_p": null,
"transcript": "ENST00000447124.1",
"protein_id": "ENSP00000390201.1",
"transcript_support_level": 4,
"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": 591,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000447124.1"
}
],
"gene_symbol": "SDC1",
"gene_hgnc_id": 10658,
"dbsnp": "rs141315088",
"frequency_reference_population": 0.0031977845,
"hom_count_reference_population": 40,
"allele_count_reference_population": 5097,
"gnomad_exomes_af": 0.00320934,
"gnomad_genomes_af": 0.00308424,
"gnomad_exomes_ac": 4643,
"gnomad_genomes_ac": 454,
"gnomad_exomes_homalt": 36,
"gnomad_genomes_homalt": 4,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.00267675518989563,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.009999999776482582,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.034,
"revel_prediction": "Benign",
"alphamissense_score": 0.065,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.55,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -0.703,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.01,
"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": -16,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Very_Strong,BS2",
"acmg_by_gene": [
{
"score": -16,
"benign_score": 16,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BS2"
],
"verdict": "Benign",
"transcript": "NM_002997.5",
"gene_symbol": "SDC1",
"hgnc_id": 10658,
"effects": [
"missense_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.203C>T",
"hgvs_p": "p.Thr68Met"
}
],
"clinvar_disease": "not provided",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:2",
"phenotype_combined": "not provided",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}