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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: 10-79612421-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=10&pos=79612421&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "10",
"pos": 79612421,
"ref": "G",
"alt": "A",
"effect": "synonymous_variant",
"transcript": "ENST00000398636.8",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.282G>A",
"hgvs_p": "p.Arg94Arg",
"transcript": "NM_005411.5",
"protein_id": "NP_005402.3",
"transcript_support_level": null,
"aa_start": 94,
"aa_end": null,
"aa_length": 248,
"cds_start": 282,
"cds_end": null,
"cds_length": 747,
"cdna_start": 420,
"cdna_end": null,
"cdna_length": 2215,
"mane_select": "ENST00000398636.8",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.282G>A",
"hgvs_p": "p.Arg94Arg",
"transcript": "ENST00000398636.8",
"protein_id": "ENSP00000381633.3",
"transcript_support_level": 1,
"aa_start": 94,
"aa_end": null,
"aa_length": 248,
"cds_start": 282,
"cds_end": null,
"cds_length": 747,
"cdna_start": 420,
"cdna_end": null,
"cdna_length": 2215,
"mane_select": "NM_005411.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.327G>A",
"hgvs_p": "p.Arg109Arg",
"transcript": "ENST00000419470.6",
"protein_id": "ENSP00000397082.2",
"transcript_support_level": 1,
"aa_start": 109,
"aa_end": null,
"aa_length": 263,
"cds_start": 327,
"cds_end": null,
"cds_length": 792,
"cdna_start": 403,
"cdna_end": null,
"cdna_length": 2210,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.282G>A",
"hgvs_p": "p.Arg94Arg",
"transcript": "ENST00000428376.6",
"protein_id": "ENSP00000411102.2",
"transcript_support_level": 1,
"aa_start": 94,
"aa_end": null,
"aa_length": 248,
"cds_start": 282,
"cds_end": null,
"cds_length": 747,
"cdna_start": 349,
"cdna_end": null,
"cdna_length": 2141,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.282G>A",
"hgvs_p": "p.Arg94Arg",
"transcript": "ENST00000429958.5",
"protein_id": "ENSP00000395527.1",
"transcript_support_level": 1,
"aa_start": 94,
"aa_end": null,
"aa_length": 157,
"cds_start": 282,
"cds_end": null,
"cds_length": 474,
"cdna_start": 335,
"cdna_end": null,
"cdna_length": 527,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.327G>A",
"hgvs_p": "p.Arg109Arg",
"transcript": "NM_001093770.3",
"protein_id": "NP_001087239.2",
"transcript_support_level": null,
"aa_start": 109,
"aa_end": null,
"aa_length": 263,
"cds_start": 327,
"cds_end": null,
"cds_length": 792,
"cdna_start": 409,
"cdna_end": null,
"cdna_length": 2216,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.282G>A",
"hgvs_p": "p.Arg94Arg",
"transcript": "NM_001164644.2",
"protein_id": "NP_001158116.1",
"transcript_support_level": null,
"aa_start": 94,
"aa_end": null,
"aa_length": 248,
"cds_start": 282,
"cds_end": null,
"cds_length": 747,
"cdna_start": 379,
"cdna_end": null,
"cdna_length": 2186,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.282G>A",
"hgvs_p": "p.Arg94Arg",
"transcript": "NM_001164647.1",
"protein_id": "NP_001158119.1",
"transcript_support_level": null,
"aa_start": 94,
"aa_end": null,
"aa_length": 248,
"cds_start": 282,
"cds_end": null,
"cds_length": 747,
"cdna_start": 349,
"cdna_end": null,
"cdna_length": 2144,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.180G>A",
"hgvs_p": "p.Arg60Arg",
"transcript": "NM_001164645.2",
"protein_id": "NP_001158117.1",
"transcript_support_level": null,
"aa_start": 60,
"aa_end": null,
"aa_length": 214,
"cds_start": 180,
"cds_end": null,
"cds_length": 645,
"cdna_start": 265,
"cdna_end": null,
"cdna_length": 2072,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.135G>A",
"hgvs_p": "p.Arg45Arg",
"transcript": "NM_001164646.2",
"protein_id": "NP_001158118.1",
"transcript_support_level": null,
"aa_start": 45,
"aa_end": null,
"aa_length": 199,
"cds_start": 135,
"cds_end": null,
"cds_length": 600,
"cdna_start": 273,
"cdna_end": null,
"cdna_length": 2080,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.327G>A",
"hgvs_p": "p.Arg109Arg",
"transcript": "XM_006717953.3",
"protein_id": "XP_006718016.1",
"transcript_support_level": null,
"aa_start": 109,
"aa_end": null,
"aa_length": 263,
"cds_start": 327,
"cds_end": null,
"cds_length": 792,
"cdna_start": 412,
"cdna_end": null,
"cdna_length": 2219,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.327G>A",
"hgvs_p": "p.Arg109Arg",
"transcript": "XM_047425667.1",
"protein_id": "XP_047281623.1",
"transcript_support_level": null,
"aa_start": 109,
"aa_end": null,
"aa_length": 263,
"cds_start": 327,
"cds_end": null,
"cds_length": 792,
"cdna_start": 480,
"cdna_end": null,
"cdna_length": 2287,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.327G>A",
"hgvs_p": "p.Arg109Arg",
"transcript": "XM_047425668.1",
"protein_id": "XP_047281624.1",
"transcript_support_level": null,
"aa_start": 109,
"aa_end": null,
"aa_length": 263,
"cds_start": 327,
"cds_end": null,
"cds_length": 792,
"cdna_start": 514,
"cdna_end": null,
"cdna_length": 2321,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.327G>A",
"hgvs_p": "p.Arg109Arg",
"transcript": "XM_047425669.1",
"protein_id": "XP_047281625.1",
"transcript_support_level": null,
"aa_start": 109,
"aa_end": null,
"aa_length": 263,
"cds_start": 327,
"cds_end": null,
"cds_length": 792,
"cdna_start": 483,
"cdna_end": null,
"cdna_length": 2290,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.327G>A",
"hgvs_p": "p.Arg109Arg",
"transcript": "XM_047425670.1",
"protein_id": "XP_047281626.1",
"transcript_support_level": null,
"aa_start": 109,
"aa_end": null,
"aa_length": 263,
"cds_start": 327,
"cds_end": null,
"cds_length": 792,
"cdna_start": 502,
"cdna_end": null,
"cdna_length": 2309,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.327G>A",
"hgvs_p": "p.Arg109Arg",
"transcript": "XM_047425671.1",
"protein_id": "XP_047281627.1",
"transcript_support_level": null,
"aa_start": 109,
"aa_end": null,
"aa_length": 263,
"cds_start": 327,
"cds_end": null,
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"cdna_start": 468,
"cdna_end": null,
"cdna_length": 2275,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.327G>A",
"hgvs_p": "p.Arg109Arg",
"transcript": "XM_047425672.1",
"protein_id": "XP_047281628.1",
"transcript_support_level": null,
"aa_start": 109,
"aa_end": null,
"aa_length": 263,
"cds_start": 327,
"cds_end": null,
"cds_length": 792,
"cdna_start": 505,
"cdna_end": null,
"cdna_length": 2312,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.327G>A",
"hgvs_p": "p.Arg109Arg",
"transcript": "XM_047425673.1",
"protein_id": "XP_047281629.1",
"transcript_support_level": null,
"aa_start": 109,
"aa_end": null,
"aa_length": 263,
"cds_start": 327,
"cds_end": null,
"cds_length": 792,
"cdna_start": 471,
"cdna_end": null,
"cdna_length": 2278,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.282G>A",
"hgvs_p": "p.Arg94Arg",
"transcript": "XM_005270062.6",
"protein_id": "XP_005270119.1",
"transcript_support_level": null,
"aa_start": 94,
"aa_end": null,
"aa_length": 248,
"cds_start": 282,
"cds_end": null,
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"cdna_start": 505,
"cdna_end": null,
"cdna_length": 2312,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.282G>A",
"hgvs_p": "p.Arg94Arg",
"transcript": "XM_047425674.1",
"protein_id": "XP_047281630.1",
"transcript_support_level": null,
"aa_start": 94,
"aa_end": null,
"aa_length": 248,
"cds_start": 282,
"cds_end": null,
"cds_length": 747,
"cdna_start": 454,
"cdna_end": null,
"cdna_length": 2261,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "R",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"hgvs_c": "c.282G>A",
"hgvs_p": "p.Arg94Arg",
"transcript": "XM_047425675.1",
"protein_id": "XP_047281631.1",
"transcript_support_level": null,
"aa_start": 94,
"aa_end": null,
"aa_length": 248,
"cds_start": 282,
"cds_end": null,
"cds_length": 747,
"cdna_start": 408,
"cdna_end": null,
"cdna_length": 2215,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "SFTPA1",
"gene_hgnc_id": 10798,
"dbsnp": "rs1136454",
"frequency_reference_population": 0.000103563834,
"hom_count_reference_population": 0,
"allele_count_reference_population": 167,
"gnomad_exomes_af": 0.000107488,
"gnomad_genomes_af": 0.0000658311,
"gnomad_exomes_ac": 157,
"gnomad_genomes_ac": 10,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.7400000095367432,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.74,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -0.376,
"phylop100way_prediction": "Benign",
"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": -5,
"acmg_classification": "Likely_benign",
"acmg_criteria": "BP4_Strong,BP7",
"acmg_by_gene": [
{
"score": -5,
"benign_score": 5,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP7"
],
"verdict": "Likely_benign",
"transcript": "ENST00000398636.8",
"gene_symbol": "SFTPA1",
"hgnc_id": 10798,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AD,AR",
"hgvs_c": "c.282G>A",
"hgvs_p": "p.Arg94Arg"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}