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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: 2-65313804-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=65313804&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 65313804,
"ref": "G",
"alt": "A",
"effect": "synonymous_variant",
"transcript": "NM_181784.3",
"consequences": [
{
"aa_ref": "H",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.954C>T",
"hgvs_p": "p.His318His",
"transcript": "NM_181784.3",
"protein_id": "NP_861449.2",
"transcript_support_level": null,
"aa_start": 318,
"aa_end": null,
"aa_length": 418,
"cds_start": 954,
"cds_end": null,
"cds_length": 1257,
"cdna_start": 1566,
"cdna_end": null,
"cdna_length": 4519,
"mane_select": "ENST00000356388.9",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_181784.3"
},
{
"aa_ref": "H",
"aa_alt": "H",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.954C>T",
"hgvs_p": "p.His318His",
"transcript": "ENST00000356388.9",
"protein_id": "ENSP00000348753.4",
"transcript_support_level": 1,
"aa_start": 318,
"aa_end": null,
"aa_length": 418,
"cds_start": 954,
"cds_end": null,
"cds_length": 1257,
"cdna_start": 1566,
"cdna_end": null,
"cdna_length": 4519,
"mane_select": "NM_181784.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000356388.9"
},
{
"aa_ref": "H",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.999C>T",
"hgvs_p": "p.His333His",
"transcript": "ENST00000452315.5",
"protein_id": "ENSP00000390595.1",
"transcript_support_level": 1,
"aa_start": 333,
"aa_end": null,
"aa_length": 431,
"cds_start": 999,
"cds_end": null,
"cds_length": 1298,
"cdna_start": 1066,
"cdna_end": null,
"cdna_length": 1365,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000452315.5"
},
{
"aa_ref": "H",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.945C>T",
"hgvs_p": "p.His315His",
"transcript": "NM_001128210.2",
"protein_id": "NP_001121682.1",
"transcript_support_level": null,
"aa_start": 315,
"aa_end": null,
"aa_length": 415,
"cds_start": 945,
"cds_end": null,
"cds_length": 1248,
"cdna_start": 1117,
"cdna_end": null,
"cdna_length": 4070,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001128210.2"
},
{
"aa_ref": "H",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.945C>T",
"hgvs_p": "p.His315His",
"transcript": "ENST00000443619.6",
"protein_id": "ENSP00000393697.2",
"transcript_support_level": 2,
"aa_start": 315,
"aa_end": null,
"aa_length": 415,
"cds_start": 945,
"cds_end": null,
"cds_length": 1248,
"cdna_start": 989,
"cdna_end": null,
"cdna_length": 1800,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000443619.6"
},
{
"aa_ref": "H",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.720C>T",
"hgvs_p": "p.His240His",
"transcript": "ENST00000931351.1",
"protein_id": "ENSP00000601410.1",
"transcript_support_level": null,
"aa_start": 240,
"aa_end": null,
"aa_length": 340,
"cds_start": 720,
"cds_end": null,
"cds_length": 1023,
"cdna_start": 1306,
"cdna_end": null,
"cdna_length": 4257,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000931351.1"
},
{
"aa_ref": "H",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.600C>T",
"hgvs_p": "p.His200His",
"transcript": "ENST00000421087.5",
"protein_id": "ENSP00000407627.1",
"transcript_support_level": 3,
"aa_start": 200,
"aa_end": null,
"aa_length": 232,
"cds_start": 600,
"cds_end": null,
"cds_length": 701,
"cdna_start": 600,
"cdna_end": null,
"cdna_length": 701,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000421087.5"
},
{
"aa_ref": "H",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.894C>T",
"hgvs_p": "p.His298His",
"transcript": "XM_047443709.1",
"protein_id": "XP_047299665.1",
"transcript_support_level": null,
"aa_start": 298,
"aa_end": null,
"aa_length": 398,
"cds_start": 894,
"cds_end": null,
"cds_length": 1197,
"cdna_start": 6611,
"cdna_end": null,
"cdna_length": 9564,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047443709.1"
},
{
"aa_ref": "H",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.585C>T",
"hgvs_p": "p.His195His",
"transcript": "XM_017003576.2",
"protein_id": "XP_016859065.1",
"transcript_support_level": null,
"aa_start": 195,
"aa_end": null,
"aa_length": 295,
"cds_start": 585,
"cds_end": null,
"cds_length": 888,
"cdna_start": 1054,
"cdna_end": null,
"cdna_length": 4007,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017003576.2"
},
{
"aa_ref": "H",
"aa_alt": "H",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.363C>T",
"hgvs_p": "p.His121His",
"transcript": "XM_047443711.1",
"protein_id": "XP_047299667.1",
"transcript_support_level": null,
"aa_start": 121,
"aa_end": null,
"aa_length": 221,
"cds_start": 363,
"cds_end": null,
"cds_length": 666,
"cdna_start": 682,
"cdna_end": null,
"cdna_length": 3635,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047443711.1"
},
{
"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": 7,
"intron_rank": 5,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.588+2930C>T",
"hgvs_p": null,
"transcript": "XM_005264200.6",
"protein_id": "XP_005264257.2",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 248,
"cds_start": null,
"cds_end": null,
"cds_length": 747,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2503,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_005264200.6"
},
{
"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": 7,
"intron_rank": 5,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.579+2930C>T",
"hgvs_p": null,
"transcript": "XM_047443710.1",
"protein_id": "XP_047299666.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 245,
"cds_start": null,
"cds_end": null,
"cds_length": 738,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2054,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047443710.1"
},
{
"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": 6,
"intron_rank": 5,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.588+2930C>T",
"hgvs_p": null,
"transcript": "XM_005264202.6",
"protein_id": "XP_005264259.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 218,
"cds_start": null,
"cds_end": null,
"cds_length": 657,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 2413,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_005264202.6"
},
{
"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": 6,
"intron_rank": 5,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "c.579+2930C>T",
"hgvs_p": null,
"transcript": "XM_047443712.1",
"protein_id": "XP_047299668.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 215,
"cds_start": null,
"cds_end": null,
"cds_length": 648,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 1964,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047443712.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "n.*787C>T",
"hgvs_p": null,
"transcript": "ENST00000426832.2",
"protein_id": "ENSP00000414551.2",
"transcript_support_level": 3,
"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": 4709,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000426832.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"hgvs_c": "n.*787C>T",
"hgvs_p": null,
"transcript": "ENST00000426832.2",
"protein_id": "ENSP00000414551.2",
"transcript_support_level": 3,
"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": 4709,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000426832.2"
}
],
"gene_symbol": "SPRED2",
"gene_hgnc_id": 17722,
"dbsnp": "rs771529653",
"frequency_reference_population": 0.000021068287,
"hom_count_reference_population": 2,
"allele_count_reference_population": 34,
"gnomad_exomes_af": 0.0000205256,
"gnomad_genomes_af": 0.0000262795,
"gnomad_exomes_ac": 30,
"gnomad_genomes_ac": 4,
"gnomad_exomes_homalt": 2,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.5799999833106995,
"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": -0.58,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.139,
"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": -11,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Moderate,BP7,BS2",
"acmg_by_gene": [
{
"score": -11,
"benign_score": 11,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Moderate",
"BP7",
"BS2"
],
"verdict": "Benign",
"transcript": "NM_181784.3",
"gene_symbol": "SPRED2",
"hgnc_id": 17722,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.954C>T",
"hgvs_p": "p.His318His"
}
],
"clinvar_disease": "not provided",
"clinvar_classification": "Likely benign",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "LB:1",
"phenotype_combined": "not provided",
"pathogenicity_classification_combined": "Likely benign",
"custom_annotations": null
}
],
"message": null
}