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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: 2-222631635-A-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=222631635&ref=A&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 222631635,
"ref": "A",
"alt": "G",
"effect": "missense_variant",
"transcript": "NM_005687.5",
"consequences": [
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser",
"transcript": "NM_005687.5",
"protein_id": "NP_005678.3",
"transcript_support_level": null,
"aa_start": 252,
"aa_end": null,
"aa_length": 589,
"cds_start": 755,
"cds_end": null,
"cds_length": 1770,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000281828.8",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_005687.5"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser",
"transcript": "ENST00000281828.8",
"protein_id": "ENSP00000281828.6",
"transcript_support_level": 1,
"aa_start": 252,
"aa_end": null,
"aa_length": 589,
"cds_start": 755,
"cds_end": null,
"cds_length": 1770,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_005687.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000281828.8"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 18,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser",
"transcript": "ENST00000875114.1",
"protein_id": "ENSP00000545173.1",
"transcript_support_level": null,
"aa_start": 252,
"aa_end": null,
"aa_length": 627,
"cds_start": 755,
"cds_end": null,
"cds_length": 1884,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000875114.1"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 18,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser",
"transcript": "ENST00000875112.1",
"protein_id": "ENSP00000545171.1",
"transcript_support_level": null,
"aa_start": 252,
"aa_end": null,
"aa_length": 626,
"cds_start": 755,
"cds_end": null,
"cds_length": 1881,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000875112.1"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser",
"transcript": "ENST00000875113.1",
"protein_id": "ENSP00000545172.1",
"transcript_support_level": null,
"aa_start": 252,
"aa_end": null,
"aa_length": 598,
"cds_start": 755,
"cds_end": null,
"cds_length": 1797,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000875113.1"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser",
"transcript": "ENST00000938936.1",
"protein_id": "ENSP00000608995.1",
"transcript_support_level": null,
"aa_start": 252,
"aa_end": null,
"aa_length": 587,
"cds_start": 755,
"cds_end": null,
"cds_length": 1764,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000938936.1"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser",
"transcript": "ENST00000938938.1",
"protein_id": "ENSP00000608997.1",
"transcript_support_level": null,
"aa_start": 252,
"aa_end": null,
"aa_length": 562,
"cds_start": 755,
"cds_end": null,
"cds_length": 1689,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000938938.1"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser",
"transcript": "ENST00000875115.1",
"protein_id": "ENSP00000545174.1",
"transcript_support_level": null,
"aa_start": 252,
"aa_end": null,
"aa_length": 558,
"cds_start": 755,
"cds_end": null,
"cds_length": 1677,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000875115.1"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser",
"transcript": "ENST00000938937.1",
"protein_id": "ENSP00000608996.1",
"transcript_support_level": null,
"aa_start": 252,
"aa_end": null,
"aa_length": 537,
"cds_start": 755,
"cds_end": null,
"cds_length": 1614,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000938937.1"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.569T>C",
"hgvs_p": "p.Phe190Ser",
"transcript": "ENST00000938935.1",
"protein_id": "ENSP00000608994.1",
"transcript_support_level": null,
"aa_start": 190,
"aa_end": null,
"aa_length": 527,
"cds_start": 569,
"cds_end": null,
"cds_length": 1584,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000938935.1"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser",
"transcript": "ENST00000958636.1",
"protein_id": "ENSP00000628695.1",
"transcript_support_level": null,
"aa_start": 252,
"aa_end": null,
"aa_length": 472,
"cds_start": 755,
"cds_end": null,
"cds_length": 1419,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000958636.1"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 18,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.458T>C",
"hgvs_p": "p.Phe153Ser",
"transcript": "XM_006712169.3",
"protein_id": "XP_006712232.1",
"transcript_support_level": null,
"aa_start": 153,
"aa_end": null,
"aa_length": 490,
"cds_start": 458,
"cds_end": null,
"cds_length": 1473,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_006712169.3"
},
{
"aa_ref": "F",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 18,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.458T>C",
"hgvs_p": "p.Phe153Ser",
"transcript": "XM_011510466.3",
"protein_id": "XP_011508768.1",
"transcript_support_level": null,
"aa_start": 153,
"aa_end": null,
"aa_length": 490,
"cds_start": 458,
"cds_end": null,
"cds_length": 1473,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011510466.3"
},
{
"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": 8,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.59-2747T>C",
"hgvs_p": null,
"transcript": "ENST00000958637.1",
"protein_id": "ENSP00000628696.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 305,
"cds_start": null,
"cds_end": null,
"cds_length": 918,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000958637.1"
},
{
"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": 3,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.58+24381T>C",
"hgvs_p": null,
"transcript": "ENST00000938939.1",
"protein_id": "ENSP00000608998.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 121,
"cds_start": null,
"cds_end": null,
"cds_length": 366,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000938939.1"
},
{
"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": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "c.58+24381T>C",
"hgvs_p": null,
"transcript": "ENST00000938940.1",
"protein_id": "ENSP00000608999.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 69,
"cds_start": null,
"cds_end": null,
"cds_length": 210,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000938940.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 18,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"hgvs_c": "n.970T>C",
"hgvs_p": null,
"transcript": "NR_130154.2",
"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_130154.2"
}
],
"gene_symbol": "FARSB",
"gene_hgnc_id": 17800,
"dbsnp": "rs1466642025",
"frequency_reference_population": 0.0000065687486,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": null,
"gnomad_genomes_af": 0.00000656875,
"gnomad_exomes_ac": null,
"gnomad_genomes_ac": 1,
"gnomad_exomes_homalt": null,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.9731180667877197,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.686,
"revel_prediction": "Pathogenic",
"alphamissense_score": 0.9675,
"alphamissense_prediction": "Pathogenic",
"bayesdelnoaf_score": 0.12,
"bayesdelnoaf_prediction": "Uncertain_significance",
"phylop100way_score": 7.425,
"phylop100way_prediction": "Uncertain_significance",
"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": 7,
"acmg_classification": "Likely_pathogenic",
"acmg_criteria": "PM2,PP3_Strong,PP5",
"acmg_by_gene": [
{
"score": 7,
"benign_score": 0,
"pathogenic_score": 7,
"criteria": [
"PM2",
"PP3_Strong",
"PP5"
],
"verdict": "Likely_pathogenic",
"transcript": "NM_005687.5",
"gene_symbol": "FARSB",
"hgnc_id": 17800,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.755T>C",
"hgvs_p": "p.Phe252Ser"
}
],
"clinvar_disease": "Cerebral calcification,Cirrhosis of liver,Interstitial pneumonitis,Rajab interstitial lung disease with brain calcifications,Vascular dilatation",
"clinvar_classification": "Pathogenic",
"clinvar_review_status": "no assertion criteria provided",
"clinvar_submissions_summary": "null",
"phenotype_combined": "Cirrhosis of liver;Cerebral calcification;Interstitial pneumonitis;Vascular dilatation|Rajab interstitial lung disease with brain calcifications",
"pathogenicity_classification_combined": "Pathogenic",
"custom_annotations": null
}
],
"message": null
}