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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: 1-231374041-G-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=231374041&ref=G&alt=C&genome=hg38&allGenes=true"API Response
json
{
"message": null,
"variants": [
{
"acmg_by_gene": [
{
"benign_score": 0,
"criteria": [
"PS3",
"PM2",
"PP3_Moderate",
"PP5"
],
"effects": [
"missense_variant"
],
"gene_symbol": "EGLN1",
"hgnc_id": 1232,
"hgvs_c": "c.950C>G",
"hgvs_p": "p.Pro317Arg",
"inheritance_mode": "AD",
"pathogenic_score": 9,
"score": 9,
"transcript": "NM_022051.3",
"verdict": "Likely_pathogenic"
},
{
"benign_score": 0,
"criteria": [
"PS3",
"PM2",
"PP3_Moderate",
"PP5"
],
"effects": [
"missense_variant"
],
"gene_symbol": "ENSG00000287856",
"hgnc_id": null,
"hgvs_c": "c.89C>G",
"hgvs_p": "p.Pro30Arg",
"inheritance_mode": "",
"pathogenic_score": 9,
"score": 9,
"transcript": "ENST00000662216.1",
"verdict": "Likely_pathogenic"
}
],
"acmg_classification": "Likely_pathogenic",
"acmg_criteria": "PS3,PM2,PP3_Moderate,PP5",
"acmg_score": 9,
"allele_count_reference_population": 1,
"alphamissense_prediction": "Pathogenic",
"alphamissense_score": 0.999,
"alt": "C",
"apogee2_prediction": null,
"apogee2_score": null,
"bayesdelnoaf_prediction": "Pathogenic",
"bayesdelnoaf_score": 0.3,
"chr": "1",
"clinvar_classification": "Conflicting classifications of pathogenicity",
"clinvar_disease": " 3, familial,Erythrocytosis,not specified",
"clinvar_review_status": "criteria provided, conflicting classifications",
"clinvar_submissions_summary": "P:1 US:1",
"computational_prediction_selected": "Pathogenic",
"computational_score_selected": 0.911996603012085,
"computational_source_selected": "MetaRNN",
"consequences": [
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 426,
"aa_ref": "P",
"aa_start": 317,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4335,
"cdna_start": 1349,
"cds_end": null,
"cds_length": 1281,
"cds_start": 950,
"consequences": [
"missense_variant"
],
"exon_count": 5,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "NM_022051.3",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.950C>G",
"hgvs_p": "p.Pro317Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "ENST00000366641.4",
"protein_coding": true,
"protein_id": "NP_071334.1",
"strand": false,
"transcript": "NM_022051.3",
"transcript_support_level": null
},
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 426,
"aa_ref": "P",
"aa_start": 317,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 4335,
"cdna_start": 1349,
"cds_end": null,
"cds_length": 1281,
"cds_start": 950,
"consequences": [
"missense_variant"
],
"exon_count": 5,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000366641.4",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.950C>G",
"hgvs_p": "p.Pro317Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": "NM_022051.3",
"protein_coding": true,
"protein_id": "ENSP00000355601.3",
"strand": false,
"transcript": "ENST00000366641.4",
"transcript_support_level": 1
},
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 139,
"aa_ref": "P",
"aa_start": 30,
"biotype": "protein_coding",
"canonical": true,
"cdna_end": null,
"cdna_length": 1361,
"cdna_start": 557,
"cds_end": null,
"cds_length": 420,
"cds_start": 89,
"consequences": [
"missense_variant"
],
"exon_count": 7,
"exon_rank": 4,
"exon_rank_end": null,
"feature": "ENST00000662216.1",
"gene_hgnc_id": null,
"gene_symbol": "ENSG00000287856",
"hgvs_c": "c.89C>G",
"hgvs_p": "p.Pro30Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000499467.1",
"strand": false,
"transcript": "ENST00000662216.1",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "pseudogene",
"canonical": false,
"cdna_end": null,
"cdna_length": 614,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 5,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000476717.2",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "n.227C>G",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000476717.2",
"transcript_support_level": 1
},
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 482,
"aa_ref": "P",
"aa_start": 373,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4512,
"cdna_start": 1526,
"cds_end": null,
"cds_length": 1449,
"cds_start": 1118,
"consequences": [
"missense_variant"
],
"exon_count": 6,
"exon_rank": 3,
"exon_rank_end": null,
"feature": "ENST00000889867.1",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.1118C>G",
"hgvs_p": "p.Pro373Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000559926.1",
"strand": false,
"transcript": "ENST00000889867.1",
"transcript_support_level": null
},
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 426,
"aa_ref": "P",
"aa_start": 317,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 1999,
"cdna_start": 1169,
"cds_end": null,
"cds_length": 1281,
"cds_start": 950,
"consequences": [
"missense_variant"
],
"exon_count": 6,
"exon_rank": 3,
"exon_rank_end": null,
"feature": "ENST00000951830.1",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.950C>G",
"hgvs_p": "p.Pro317Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000621889.1",
"strand": false,
"transcript": "ENST00000951830.1",
"transcript_support_level": null
},
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 383,
"aa_ref": "P",
"aa_start": 317,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4267,
"cdna_start": 1349,
"cds_end": null,
"cds_length": 1152,
"cds_start": 950,
"consequences": [
"missense_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "NM_001377260.1",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.950C>G",
"hgvs_p": "p.Pro317Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001364189.1",
"strand": false,
"transcript": "NM_001377260.1",
"transcript_support_level": null
},
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 345,
"aa_ref": "P",
"aa_start": 317,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4198,
"cdna_start": 1349,
"cds_end": null,
"cds_length": 1038,
"cds_start": 950,
"consequences": [
"missense_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "NM_001377261.1",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.950C>G",
"hgvs_p": "p.Pro317Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "NP_001364190.1",
"strand": false,
"transcript": "NM_001377261.1",
"transcript_support_level": null
},
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 174,
"aa_ref": "P",
"aa_start": 108,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 1090,
"cdna_start": 324,
"cds_end": null,
"cds_length": 525,
"cds_start": 323,
"consequences": [
"missense_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000658954.1",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.323C>G",
"hgvs_p": "p.Pro108Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000499299.1",
"strand": false,
"transcript": "ENST00000658954.1",
"transcript_support_level": null
},
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 113,
"aa_ref": "P",
"aa_start": 85,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3108,
"cdna_start": 254,
"cds_end": null,
"cds_length": 342,
"cds_start": 254,
"consequences": [
"missense_variant"
],
"exon_count": 4,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000667629.1",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.254C>G",
"hgvs_p": "p.Pro85Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000499629.1",
"strand": false,
"transcript": "ENST00000667629.1",
"transcript_support_level": null
},
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 58,
"aa_ref": "P",
"aa_start": 30,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 3288,
"cdna_start": 480,
"cds_end": null,
"cds_length": 177,
"cds_start": 89,
"consequences": [
"missense_variant"
],
"exon_count": 5,
"exon_rank": 3,
"exon_rank_end": null,
"feature": "ENST00000653908.1",
"gene_hgnc_id": null,
"gene_symbol": "ENSG00000287856",
"hgvs_c": "c.89C>G",
"hgvs_p": "p.Pro30Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000499669.1",
"strand": false,
"transcript": "ENST00000653908.1",
"transcript_support_level": null
},
{
"aa_alt": "R",
"aa_end": null,
"aa_length": 345,
"aa_ref": "P",
"aa_start": 317,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 1480,
"cdna_start": 1349,
"cds_end": null,
"cds_length": 1038,
"cds_start": 950,
"consequences": [
"missense_variant"
],
"exon_count": 3,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "XM_024447734.2",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.950C>G",
"hgvs_p": "p.Pro317Arg",
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "XP_024303502.1",
"strand": false,
"transcript": "XM_024447734.2",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": 386,
"aa_ref": null,
"aa_start": null,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 4262,
"cdna_start": null,
"cds_end": null,
"cds_length": 1161,
"cds_start": null,
"consequences": [
"intron_variant"
],
"exon_count": 4,
"exon_rank": null,
"exon_rank_end": null,
"feature": "ENST00000889866.1",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.892-3343C>G",
"hgvs_p": null,
"intron_rank": 1,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000559925.1",
"strand": false,
"transcript": "ENST00000889866.1",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": 80,
"aa_ref": null,
"aa_start": null,
"biotype": "protein_coding",
"canonical": false,
"cdna_end": null,
"cdna_length": 783,
"cdna_start": null,
"cds_end": null,
"cds_length": 243,
"cds_start": null,
"consequences": [
"intron_variant"
],
"exon_count": 2,
"exon_rank": null,
"exon_rank_end": null,
"feature": "ENST00000670301.1",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "c.229-7566C>G",
"hgvs_p": null,
"intron_rank": 1,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": true,
"protein_id": "ENSP00000499368.1",
"strand": false,
"transcript": "ENST00000670301.1",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "pseudogene",
"canonical": false,
"cdna_end": null,
"cdna_length": 3252,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 8,
"exon_rank": 5,
"exon_rank_end": null,
"feature": "ENST00000653198.1",
"gene_hgnc_id": null,
"gene_symbol": "ENSG00000287856",
"hgvs_c": "n.492C>G",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000653198.1",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "nonsense_mediated_decay",
"canonical": false,
"cdna_end": null,
"cdna_length": 1525,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 5,
"exon_rank": 2,
"exon_rank_end": null,
"feature": "ENST00000654803.1",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "n.170C>G",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": "ENSP00000499591.1",
"strand": false,
"transcript": "ENST00000654803.1",
"transcript_support_level": null
},
{
"aa_alt": null,
"aa_end": null,
"aa_length": null,
"aa_ref": null,
"aa_start": null,
"biotype": "retained_intron",
"canonical": false,
"cdna_end": null,
"cdna_length": 570,
"cdna_start": null,
"cds_end": null,
"cds_length": null,
"cds_start": null,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_count": 2,
"exon_rank": 1,
"exon_rank_end": null,
"feature": "ENST00000663780.1",
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"hgvs_c": "n.50C>G",
"hgvs_p": null,
"intron_rank": null,
"intron_rank_end": null,
"mane_plus": null,
"mane_select": null,
"protein_coding": false,
"protein_id": null,
"strand": false,
"transcript": "ENST00000663780.1",
"transcript_support_level": null
}
],
"custom_annotations": null,
"dbscsnv_ada_prediction": null,
"dbscsnv_ada_score": null,
"dbsnp": "rs80358193",
"effect": "missense_variant",
"frequency_reference_population": 6.843718e-7,
"gene_hgnc_id": 1232,
"gene_symbol": "EGLN1",
"gnomad_exomes_ac": 1,
"gnomad_exomes_af": 6.84372e-7,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_ac": null,
"gnomad_genomes_af": null,
"gnomad_genomes_homalt": null,
"gnomad_mito_heteroplasmic": null,
"gnomad_mito_homoplasmic": null,
"hom_count_reference_population": 0,
"mitotip_prediction": null,
"mitotip_score": null,
"pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
"phenotype_combined": "Erythrocytosis, familial, 3|not specified",
"phylop100way_prediction": "Pathogenic",
"phylop100way_score": 10.003,
"pos": 231374041,
"ref": "G",
"revel_prediction": "Uncertain_significance",
"revel_score": 0.563,
"splice_prediction_selected": "Benign",
"splice_score_selected": 0,
"splice_source_selected": "max_spliceai",
"spliceai_max_prediction": "Benign",
"spliceai_max_score": 0,
"transcript": "NM_022051.3"
}
]
}