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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: 5-96749244-T-G (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=5&pos=96749244&ref=T&alt=G&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "5",
      "pos": 96749244,
      "ref": "T",
      "alt": "G",
      "effect": "intron_variant",
      "transcript": "ENST00000675179.1",
      "consequences": [
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": 19,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": 1515,
          "hgvs_c": "c.1428+631T>G",
          "hgvs_p": null,
          "transcript": "NM_001750.7",
          "protein_id": "NP_001741.4",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 791,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2376,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4490,
          "mane_select": "ENST00000675179.1",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": 19,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": 1515,
          "hgvs_c": "c.1428+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000675179.1",
          "protein_id": "ENSP00000501872.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 791,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2376,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4490,
          "mane_select": "NM_001750.7",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": 17,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": null,
          "hgvs_c": "c.1179+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000341926.7",
          "protein_id": "ENSP00000339914.3",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 708,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2127,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2487,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": 18,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": null,
          "hgvs_c": "c.1140+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000338252.7",
          "protein_id": "ENSP00000343421.3",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 695,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2088,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2972,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 29,
          "intron_rank": 16,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": null,
          "hgvs_c": "c.1113+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000309190.9",
          "protein_id": "ENSP00000312523.5",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 686,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2061,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4282,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": 15,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": null,
          "hgvs_c": "c.1074+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000509903.5",
          "protein_id": "ENSP00000426946.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 673,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2022,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2171,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": 6,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": null,
          "hgvs_c": "c.450+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000510500.5",
          "protein_id": "ENSP00000424160.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 464,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1395,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1835,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": 6,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": null,
          "hgvs_c": "c.432+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000437034.6",
          "protein_id": "ENSP00000412374.2",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 435,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1308,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 3377,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 26,
          "intron_rank": 13,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": null,
          "hgvs_c": "n.1121+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000348386.7",
          "protein_id": null,
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 2272,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": null,
          "hgvs_c": "n.348+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000484552.6",
          "protein_id": "ENSP00000432878.2",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1767,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 32,
          "intron_rank": 20,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": null,
          "hgvs_c": "c.1428+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000508830.5",
          "protein_id": "ENSP00000425721.1",
          "transcript_support_level": 5,
          "aa_start": null,
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          "aa_length": 791,
          "cds_start": -4,
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          "cds_length": 2376,
          "cdna_start": null,
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          "cdna_length": 2539,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
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          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
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          "exon_count": 31,
          "intron_rank": 18,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": 1515,
          "hgvs_c": "c.1371+631T>G",
          "hgvs_p": null,
          "transcript": "NM_001042441.3",
          "protein_id": "NP_001035906.1",
          "transcript_support_level": null,
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          "cds_start": -4,
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          "cdna_start": null,
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        {
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
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          ],
          "exon_rank": null,
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          "exon_count": 31,
          "intron_rank": 18,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": 1515,
          "hgvs_c": "c.1362+631T>G",
          "hgvs_p": null,
          "transcript": "NM_001042442.3",
          "protein_id": "NP_001035907.1",
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          "cds_start": -4,
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          "cdna_start": null,
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        {
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          "gene_symbol": "CAST",
          "gene_hgnc_id": null,
          "hgvs_c": "c.1362+631T>G",
          "hgvs_p": null,
          "transcript": "ENST00000674984.1",
          "protein_id": "ENSP00000501713.1",
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        {
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          ],
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          "intron_rank": 18,
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          "gene_symbol": "CAST",
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          "hgvs_c": "c.1344+631T>G",
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          "gene_symbol": "CAST",
          "gene_hgnc_id": 1515,
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          "protein_id": "NP_001317555.1",
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        {
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          "intron_rank": 18,
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          "gene_symbol": "CAST",
          "gene_hgnc_id": 1515,
          "hgvs_c": "c.1317+631T>G",
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          "transcript": "NM_001375317.1",
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        {
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          "exon_count": 31,
          "intron_rank": 18,
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          "gene_symbol": "CAST",
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          "hgvs_c": "c.1317+631T>G",
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        {
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          "strand": true,
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          ],
          "exon_rank": null,
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          "exon_count": 30,
          "intron_rank": 17,
          "intron_rank_end": null,
          "gene_symbol": "CAST",
          "gene_hgnc_id": 1515,
          "hgvs_c": "c.1305+631T>G",
          "hgvs_p": null,
          "transcript": "NM_001330627.2",
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      "gene_symbol": "CAST",
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      "dbsnp": "rs3756623",
      "frequency_reference_population": 0.096452504,
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      "gnomad_exomes_af": null,
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      "gnomad_genomes_homalt": 854,
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      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.8100000023841858,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
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      "alphamissense_score": null,
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      "bayesdelnoaf_score": -0.81,
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      "phylop100way_score": -0.075,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
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      "acmg_score": -12,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BA1",
      "acmg_by_gene": [
        {
          "score": -12,
          "benign_score": 12,
          "pathogenic_score": 0,
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          "verdict": "Benign",
          "transcript": "ENST00000675179.1",
          "gene_symbol": "CAST",
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          "effects": [
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          "inheritance_mode": "AR",
          "hgvs_c": "c.1428+631T>G",
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      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "custom_annotations": null
    }
  ],
  "message": null
}