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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: 16-871187-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=871187&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "16",
"pos": 871187,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_022773.4",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.1052G>A",
"hgvs_p": "p.Arg351Gln",
"transcript": "NM_022773.4",
"protein_id": "NP_073610.2",
"transcript_support_level": null,
"aa_start": 351,
"aa_end": null,
"aa_length": 567,
"cds_start": 1052,
"cds_end": null,
"cds_length": 1704,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000262301.16",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_022773.4"
},
{
"aa_ref": "R",
"aa_alt": "Q",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.1052G>A",
"hgvs_p": "p.Arg351Gln",
"transcript": "ENST00000262301.16",
"protein_id": "ENSP00000262301.12",
"transcript_support_level": 5,
"aa_start": 351,
"aa_end": null,
"aa_length": 567,
"cds_start": 1052,
"cds_end": null,
"cds_length": 1704,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_022773.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000262301.16"
},
{
"aa_ref": "R",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.1052G>A",
"hgvs_p": "p.Arg351Gln",
"transcript": "ENST00000963976.1",
"protein_id": "ENSP00000634035.1",
"transcript_support_level": null,
"aa_start": 351,
"aa_end": null,
"aa_length": 593,
"cds_start": 1052,
"cds_end": null,
"cds_length": 1782,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000963976.1"
},
{
"aa_ref": "R",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.1052G>A",
"hgvs_p": "p.Arg351Gln",
"transcript": "NM_001352020.1",
"protein_id": "NP_001338949.1",
"transcript_support_level": null,
"aa_start": 351,
"aa_end": null,
"aa_length": 546,
"cds_start": 1052,
"cds_end": null,
"cds_length": 1641,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001352020.1"
},
{
"aa_ref": "R",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.725G>A",
"hgvs_p": "p.Arg242Gln",
"transcript": "NM_001352019.2",
"protein_id": "NP_001338948.1",
"transcript_support_level": null,
"aa_start": 242,
"aa_end": null,
"aa_length": 458,
"cds_start": 725,
"cds_end": null,
"cds_length": 1377,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001352019.2"
},
{
"aa_ref": "R",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.653G>A",
"hgvs_p": "p.Arg218Gln",
"transcript": "NM_001352018.2",
"protein_id": "NP_001338947.1",
"transcript_support_level": null,
"aa_start": 218,
"aa_end": null,
"aa_length": 434,
"cds_start": 653,
"cds_end": null,
"cds_length": 1305,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001352018.2"
},
{
"aa_ref": "R",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.401G>A",
"hgvs_p": "p.Arg134Gln",
"transcript": "NM_001352017.2",
"protein_id": "NP_001338946.1",
"transcript_support_level": null,
"aa_start": 134,
"aa_end": null,
"aa_length": 350,
"cds_start": 401,
"cds_end": null,
"cds_length": 1053,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001352017.2"
},
{
"aa_ref": "R",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.401G>A",
"hgvs_p": "p.Arg134Gln",
"transcript": "NM_001352021.2",
"protein_id": "NP_001338950.1",
"transcript_support_level": null,
"aa_start": 134,
"aa_end": null,
"aa_length": 350,
"cds_start": 401,
"cds_end": null,
"cds_length": 1053,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001352021.2"
},
{
"aa_ref": "R",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.401G>A",
"hgvs_p": "p.Arg134Gln",
"transcript": "ENST00000568897.5",
"protein_id": "ENSP00000458135.1",
"transcript_support_level": 5,
"aa_start": 134,
"aa_end": null,
"aa_length": 350,
"cds_start": 401,
"cds_end": null,
"cds_length": 1053,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000568897.5"
},
{
"aa_ref": "R",
"aa_alt": "Q",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.341G>A",
"hgvs_p": "p.Arg114Gln",
"transcript": "ENST00000543238.5",
"protein_id": "ENSP00000437418.1",
"transcript_support_level": 2,
"aa_start": 114,
"aa_end": null,
"aa_length": 330,
"cds_start": 341,
"cds_end": null,
"cds_length": 993,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000543238.5"
},
{
"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": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "n.*589G>A",
"hgvs_p": null,
"transcript": "ENST00000545827.6",
"protein_id": "ENSP00000443820.2",
"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": "ENST00000545827.6"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "n.569G>A",
"hgvs_p": null,
"transcript": "ENST00000565198.1",
"protein_id": null,
"transcript_support_level": 4,
"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": "ENST00000565198.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "n.502G>A",
"hgvs_p": null,
"transcript": "ENST00000568268.5",
"protein_id": null,
"transcript_support_level": 4,
"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": "ENST00000568268.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 1,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "n.2674G>A",
"hgvs_p": null,
"transcript": "ENST00000569516.5",
"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": "ENST00000569516.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "n.1056G>A",
"hgvs_p": null,
"transcript": "NR_147885.2",
"protein_id": null,
"transcript_support_level": null,
"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": "NR_147885.2"
},
{
"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": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "n.*589G>A",
"hgvs_p": null,
"transcript": "ENST00000545827.6",
"protein_id": "ENSP00000443820.2",
"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": "ENST00000545827.6"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.*130G>A",
"hgvs_p": null,
"transcript": "ENST00000570014.5",
"protein_id": "ENSP00000454672.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 197,
"cds_start": null,
"cds_end": null,
"cds_length": 595,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000570014.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"hgvs_c": "c.*100G>A",
"hgvs_p": null,
"transcript": "ENST00000566627.5",
"protein_id": "ENSP00000455162.1",
"transcript_support_level": 3,
"aa_start": null,
"aa_end": null,
"aa_length": 149,
"cds_start": null,
"cds_end": null,
"cds_length": 451,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000566627.5"
}
],
"gene_symbol": "LMF1",
"gene_hgnc_id": 14154,
"dbsnp": "rs192520307",
"frequency_reference_population": 0.0017585892,
"hom_count_reference_population": 16,
"allele_count_reference_population": 2826,
"gnomad_exomes_af": 0.00148217,
"gnomad_genomes_af": 0.00439777,
"gnomad_exomes_ac": 2156,
"gnomad_genomes_ac": 670,
"gnomad_exomes_homalt": 9,
"gnomad_genomes_homalt": 7,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.00429341197013855,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.012,
"revel_prediction": "Benign",
"alphamissense_score": 0.0691,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.79,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -4.732,
"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": -20,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Very_Strong,BS1,BS2",
"acmg_by_gene": [
{
"score": -20,
"benign_score": 20,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BS1",
"BS2"
],
"verdict": "Benign",
"transcript": "NM_022773.4",
"gene_symbol": "LMF1",
"hgnc_id": 14154,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1052G>A",
"hgvs_p": "p.Arg351Gln"
}
],
"clinvar_disease": "Cardiovascular phenotype,not provided,not specified",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:6",
"phenotype_combined": "not specified|not provided|Cardiovascular phenotype",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}