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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: 6-154833309-A-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=6&pos=154833309&ref=A&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "6",
"pos": 154833309,
"ref": "A",
"alt": "G",
"effect": "missense_variant",
"transcript": "NM_001286188.1",
"consequences": [
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 20,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3730A>G",
"hgvs_p": "p.Asn1244Asp",
"transcript": "NM_014892.5",
"protein_id": "NP_055707.3",
"transcript_support_level": null,
"aa_start": 1244,
"aa_end": null,
"aa_length": 1271,
"cds_start": 3730,
"cds_end": null,
"cds_length": 3816,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000367178.8",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_014892.5"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 20,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3730A>G",
"hgvs_p": "p.Asn1244Asp",
"transcript": "ENST00000367178.8",
"protein_id": "ENSP00000356146.3",
"transcript_support_level": 2,
"aa_start": 1244,
"aa_end": null,
"aa_length": 1271,
"cds_start": 3730,
"cds_end": null,
"cds_length": 3816,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_014892.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000367178.8"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3964A>G",
"hgvs_p": "p.Asn1322Asp",
"transcript": "NM_001286188.1",
"protein_id": "NP_001273117.1",
"transcript_support_level": null,
"aa_start": 1322,
"aa_end": null,
"aa_length": 1349,
"cds_start": 3964,
"cds_end": null,
"cds_length": 4050,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001286188.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3964A>G",
"hgvs_p": "p.Asn1322Asp",
"transcript": "ENST00000417268.3",
"protein_id": "ENSP00000413098.2",
"transcript_support_level": 2,
"aa_start": 1322,
"aa_end": null,
"aa_length": 1349,
"cds_start": 3964,
"cds_end": null,
"cds_length": 4050,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000417268.3"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3928A>G",
"hgvs_p": "p.Asn1310Asp",
"transcript": "NM_001286189.1",
"protein_id": "NP_001273118.1",
"transcript_support_level": null,
"aa_start": 1310,
"aa_end": null,
"aa_length": 1337,
"cds_start": 3928,
"cds_end": null,
"cds_length": 4014,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001286189.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3928A>G",
"hgvs_p": "p.Asn1310Asp",
"transcript": "ENST00000367186.7",
"protein_id": "ENSP00000356154.4",
"transcript_support_level": 2,
"aa_start": 1310,
"aa_end": null,
"aa_length": 1337,
"cds_start": 3928,
"cds_end": null,
"cds_length": 4014,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000367186.7"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3865A>G",
"hgvs_p": "p.Asn1289Asp",
"transcript": "NM_001286194.1",
"protein_id": "NP_001273123.1",
"transcript_support_level": null,
"aa_start": 1289,
"aa_end": null,
"aa_length": 1316,
"cds_start": 3865,
"cds_end": null,
"cds_length": 3951,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001286194.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3730A>G",
"hgvs_p": "p.Asn1244Asp",
"transcript": "NM_001286199.2",
"protein_id": "NP_001273128.1",
"transcript_support_level": null,
"aa_start": 1244,
"aa_end": null,
"aa_length": 1271,
"cds_start": 3730,
"cds_end": null,
"cds_length": 3816,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001286199.2"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 20,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3730A>G",
"hgvs_p": "p.Asn1244Asp",
"transcript": "ENST00000899496.1",
"protein_id": "ENSP00000569555.1",
"transcript_support_level": null,
"aa_start": 1244,
"aa_end": null,
"aa_length": 1271,
"cds_start": 3730,
"cds_end": null,
"cds_length": 3816,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000899496.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 19,
"exon_rank_end": null,
"exon_count": 19,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3664A>G",
"hgvs_p": "p.Asn1222Asp",
"transcript": "ENST00000913266.1",
"protein_id": "ENSP00000583325.1",
"transcript_support_level": null,
"aa_start": 1222,
"aa_end": null,
"aa_length": 1249,
"cds_start": 3664,
"cds_end": null,
"cds_length": 3750,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000913266.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 19,
"exon_rank_end": null,
"exon_count": 19,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3661A>G",
"hgvs_p": "p.Asn1221Asp",
"transcript": "ENST00000913267.1",
"protein_id": "ENSP00000583326.1",
"transcript_support_level": null,
"aa_start": 1221,
"aa_end": null,
"aa_length": 1248,
"cds_start": 3661,
"cds_end": null,
"cds_length": 3747,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000913267.1"
},
{
"aa_ref": "N",
"aa_alt": "D",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 17,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"hgvs_c": "c.3439A>G",
"hgvs_p": "p.Asn1147Asp",
"transcript": "ENST00000913268.1",
"protein_id": "ENSP00000583327.1",
"transcript_support_level": null,
"aa_start": 1147,
"aa_end": null,
"aa_length": 1174,
"cds_start": 3439,
"cds_end": null,
"cds_length": 3525,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000913268.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"5_prime_UTR_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TIAM2",
"gene_hgnc_id": 11806,
"hgvs_c": "c.-661A>G",
"hgvs_p": null,
"transcript": "ENST00000461783.7",
"protein_id": "ENSP00000437188.2",
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": 1701,
"cds_start": null,
"cds_end": null,
"cds_length": 5106,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000461783.7"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TIAM2",
"gene_hgnc_id": 11806,
"hgvs_c": "n.-46A>G",
"hgvs_p": null,
"transcript": "ENST00000460692.2",
"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": "pseudogene",
"feature": "ENST00000460692.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"upstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TIAM2",
"gene_hgnc_id": 11806,
"hgvs_c": "n.-36A>G",
"hgvs_p": null,
"transcript": "ENST00000535064.1",
"protein_id": null,
"transcript_support_level": 5,
"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": "pseudogene",
"feature": "ENST00000535064.1"
}
],
"gene_symbol": "SCAF8",
"gene_hgnc_id": 20959,
"dbsnp": "rs745576504",
"frequency_reference_population": 0.00006381969,
"hom_count_reference_population": 0,
"allele_count_reference_population": 103,
"gnomad_exomes_af": 0.0000656769,
"gnomad_genomes_af": 0.0000459861,
"gnomad_exomes_ac": 96,
"gnomad_genomes_ac": 7,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.028522849082946777,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.141,
"revel_prediction": "Benign",
"alphamissense_score": 0.0711,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.72,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 1.257,
"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": -2,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong",
"acmg_by_gene": [
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "NM_001286188.1",
"gene_symbol": "SCAF8",
"hgnc_id": 20959,
"effects": [
"missense_variant"
],
"inheritance_mode": "",
"hgvs_c": "c.3964A>G",
"hgvs_p": "p.Asn1322Asp"
},
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "ENST00000461783.7",
"gene_symbol": "TIAM2",
"hgnc_id": 11806,
"effects": [
"5_prime_UTR_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.-661A>G",
"hgvs_p": null
}
],
"clinvar_disease": "not specified",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "US:1",
"phenotype_combined": "not specified",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}