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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: 2-130946624-C-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=130946624&ref=C&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 130946624,
"ref": "C",
"alt": "A",
"effect": "missense_variant",
"transcript": "NM_001367493.1",
"consequences": [
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.3974C>A",
"hgvs_p": "p.Thr1325Lys",
"transcript": "NM_001367493.1",
"protein_id": "NP_001354422.1",
"transcript_support_level": null,
"aa_start": 1325,
"aa_end": null,
"aa_length": 1876,
"cds_start": 3974,
"cds_end": null,
"cds_length": 5631,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000409359.7",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001367493.1"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.3974C>A",
"hgvs_p": "p.Thr1325Lys",
"transcript": "ENST00000409359.7",
"protein_id": "ENSP00000386794.3",
"transcript_support_level": 5,
"aa_start": 1325,
"aa_end": null,
"aa_length": 1876,
"cds_start": 3974,
"cds_end": null,
"cds_length": 5631,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_001367493.1",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000409359.7"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.488C>A",
"hgvs_p": "p.Thr163Lys",
"transcript": "ENST00000392953.8",
"protein_id": "ENSP00000376680.5",
"transcript_support_level": 1,
"aa_start": 163,
"aa_end": null,
"aa_length": 694,
"cds_start": 488,
"cds_end": null,
"cds_length": 2085,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000392953.8"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.3974C>A",
"hgvs_p": "p.Thr1325Lys",
"transcript": "ENST00000918336.1",
"protein_id": "ENSP00000588395.1",
"transcript_support_level": null,
"aa_start": 1325,
"aa_end": null,
"aa_length": 1865,
"cds_start": 3974,
"cds_end": null,
"cds_length": 5598,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000918336.1"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.3974C>A",
"hgvs_p": "p.Thr1325Lys",
"transcript": "ENST00000918335.1",
"protein_id": "ENSP00000588394.1",
"transcript_support_level": null,
"aa_start": 1325,
"aa_end": null,
"aa_length": 1827,
"cds_start": 3974,
"cds_end": null,
"cds_length": 5484,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000918335.1"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.3974C>A",
"hgvs_p": "p.Thr1325Lys",
"transcript": "ENST00000918338.1",
"protein_id": "ENSP00000588397.1",
"transcript_support_level": null,
"aa_start": 1325,
"aa_end": null,
"aa_length": 1576,
"cds_start": 3974,
"cds_end": null,
"cds_length": 4731,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000918338.1"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.461C>A",
"hgvs_p": "p.Thr154Lys",
"transcript": "NM_001375900.1",
"protein_id": "NP_001362829.1",
"transcript_support_level": null,
"aa_start": 154,
"aa_end": null,
"aa_length": 705,
"cds_start": 461,
"cds_end": null,
"cds_length": 2118,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001375900.1"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.416C>A",
"hgvs_p": "p.Thr139Lys",
"transcript": "NM_015320.4",
"protein_id": "NP_056135.2",
"transcript_support_level": null,
"aa_start": 139,
"aa_end": null,
"aa_length": 690,
"cds_start": 416,
"cds_end": null,
"cds_length": 2073,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_015320.4"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.416C>A",
"hgvs_p": "p.Thr139Lys",
"transcript": "ENST00000326016.10",
"protein_id": "ENSP00000316845.5",
"transcript_support_level": 2,
"aa_start": 139,
"aa_end": null,
"aa_length": 690,
"cds_start": 416,
"cds_end": null,
"cds_length": 2073,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000326016.10"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.461C>A",
"hgvs_p": "p.Thr154Lys",
"transcript": "ENST00000918337.1",
"protein_id": "ENSP00000588396.1",
"transcript_support_level": null,
"aa_start": 154,
"aa_end": null,
"aa_length": 656,
"cds_start": 461,
"cds_end": null,
"cds_length": 1971,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000918337.1"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.305C>A",
"hgvs_p": "p.Thr102Lys",
"transcript": "NM_001375901.1",
"protein_id": "NP_001362830.1",
"transcript_support_level": null,
"aa_start": 102,
"aa_end": null,
"aa_length": 653,
"cds_start": 305,
"cds_end": null,
"cds_length": 1962,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001375901.1"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.416C>A",
"hgvs_p": "p.Thr139Lys",
"transcript": "ENST00000611048.4",
"protein_id": "ENSP00000483548.1",
"transcript_support_level": 5,
"aa_start": 139,
"aa_end": null,
"aa_length": 630,
"cds_start": 416,
"cds_end": null,
"cds_length": 1893,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000611048.4"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.956C>A",
"hgvs_p": "p.Thr319Lys",
"transcript": "ENST00000438985.5",
"protein_id": "ENSP00000389661.1",
"transcript_support_level": 2,
"aa_start": 319,
"aa_end": null,
"aa_length": 372,
"cds_start": 956,
"cds_end": null,
"cds_length": 1119,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000438985.5"
},
{
"aa_ref": "T",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "c.416C>A",
"hgvs_p": "p.Thr139Lys",
"transcript": "ENST00000428230.6",
"protein_id": "ENSP00000398455.2",
"transcript_support_level": 5,
"aa_start": 139,
"aa_end": null,
"aa_length": 192,
"cds_start": 416,
"cds_end": null,
"cds_length": 579,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000428230.6"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"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": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "n.4182C>A",
"hgvs_p": null,
"transcript": "ENST00000526381.2",
"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": "retained_intron",
"feature": "ENST00000526381.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "n.*507C>A",
"hgvs_p": null,
"transcript": "ENST00000636987.1",
"protein_id": "ENSP00000490717.1",
"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": "nonsense_mediated_decay",
"feature": "ENST00000636987.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"hgvs_c": "n.*507C>A",
"hgvs_p": null,
"transcript": "ENST00000636987.1",
"protein_id": "ENSP00000490717.1",
"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": "nonsense_mediated_decay",
"feature": "ENST00000636987.1"
}
],
"gene_symbol": "ARHGEF4",
"gene_hgnc_id": 684,
"dbsnp": "rs1223136947",
"frequency_reference_population": 0.0000117721265,
"hom_count_reference_population": 0,
"allele_count_reference_population": 19,
"gnomad_exomes_af": 0.0000116298,
"gnomad_genomes_af": 0.0000131385,
"gnomad_exomes_ac": 17,
"gnomad_genomes_ac": 2,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.1273295283317566,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.12,
"revel_prediction": "Benign",
"alphamissense_score": 0.0784,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.44,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -2.591,
"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": 0,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,BP4_Moderate",
"acmg_by_gene": [
{
"score": 0,
"benign_score": 2,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "NM_001367493.1",
"gene_symbol": "ARHGEF4",
"hgnc_id": 684,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.3974C>A",
"hgvs_p": "p.Thr1325Lys"
}
],
"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
}