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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: 16-72787396-G-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=72787396&ref=G&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "16",
      "pos": 72787396,
      "ref": "G",
      "alt": "A",
      "effect": "missense_variant",
      "transcript": "NM_006885.4",
      "consequences": [
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.10880C>T",
          "hgvs_p": "p.Ala3627Val",
          "transcript": "NM_006885.4",
          "protein_id": "NP_008816.3",
          "transcript_support_level": null,
          "aa_start": 3627,
          "aa_end": null,
          "aa_length": 3703,
          "cds_start": 10880,
          "cds_end": null,
          "cds_length": 11112,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000268489.10",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_006885.4"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.10880C>T",
          "hgvs_p": "p.Ala3627Val",
          "transcript": "ENST00000268489.10",
          "protein_id": "ENSP00000268489.5",
          "transcript_support_level": 1,
          "aa_start": 3627,
          "aa_end": null,
          "aa_length": 3703,
          "cds_start": 10880,
          "cds_end": null,
          "cds_length": 11112,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_006885.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000268489.10"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.8138C>T",
          "hgvs_p": "p.Ala2713Val",
          "transcript": "ENST00000397992.5",
          "protein_id": "ENSP00000438926.3",
          "transcript_support_level": 1,
          "aa_start": 2713,
          "aa_end": null,
          "aa_length": 2789,
          "cds_start": 8138,
          "cds_end": null,
          "cds_length": 8370,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000397992.5"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 17,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.10880C>T",
          "hgvs_p": "p.Ala3627Val",
          "transcript": "NM_001386735.1",
          "protein_id": "NP_001373664.1",
          "transcript_support_level": null,
          "aa_start": 3627,
          "aa_end": null,
          "aa_length": 3703,
          "cds_start": 10880,
          "cds_end": null,
          "cds_length": 11112,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001386735.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 18,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.10880C>T",
          "hgvs_p": "p.Ala3627Val",
          "transcript": "ENST00000641206.2",
          "protein_id": "ENSP00000493252.1",
          "transcript_support_level": null,
          "aa_start": 3627,
          "aa_end": null,
          "aa_length": 3703,
          "cds_start": 10880,
          "cds_end": null,
          "cds_length": 11112,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000641206.2"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.8138C>T",
          "hgvs_p": "p.Ala2713Val",
          "transcript": "NM_001164766.2",
          "protein_id": "NP_001158238.1",
          "transcript_support_level": null,
          "aa_start": 2713,
          "aa_end": null,
          "aa_length": 2789,
          "cds_start": 8138,
          "cds_end": null,
          "cds_length": 8370,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001164766.2"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.10880C>T",
          "hgvs_p": "p.Ala3627Val",
          "transcript": "XM_047434165.1",
          "protein_id": "XP_047290121.1",
          "transcript_support_level": null,
          "aa_start": 3627,
          "aa_end": null,
          "aa_length": 3703,
          "cds_start": 10880,
          "cds_end": null,
          "cds_length": 11112,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047434165.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.10880C>T",
          "hgvs_p": "p.Ala3627Val",
          "transcript": "XM_047434166.1",
          "protein_id": "XP_047290122.1",
          "transcript_support_level": null,
          "aa_start": 3627,
          "aa_end": null,
          "aa_length": 3703,
          "cds_start": 10880,
          "cds_end": null,
          "cds_length": 11112,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047434166.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.10880C>T",
          "hgvs_p": "p.Ala3627Val",
          "transcript": "XM_047434167.1",
          "protein_id": "XP_047290123.1",
          "transcript_support_level": null,
          "aa_start": 3627,
          "aa_end": null,
          "aa_length": 3703,
          "cds_start": 10880,
          "cds_end": null,
          "cds_length": 11112,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047434167.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.10877C>T",
          "hgvs_p": "p.Ala3626Val",
          "transcript": "XM_047434168.1",
          "protein_id": "XP_047290124.1",
          "transcript_support_level": null,
          "aa_start": 3626,
          "aa_end": null,
          "aa_length": 3702,
          "cds_start": 10877,
          "cds_end": null,
          "cds_length": 11109,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047434168.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.8231C>T",
          "hgvs_p": "p.Ala2744Val",
          "transcript": "XM_017023251.3",
          "protein_id": "XP_016878740.1",
          "transcript_support_level": null,
          "aa_start": 2744,
          "aa_end": null,
          "aa_length": 2820,
          "cds_start": 8231,
          "cds_end": null,
          "cds_length": 8463,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_017023251.3"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.8228C>T",
          "hgvs_p": "p.Ala2743Val",
          "transcript": "XM_024450291.2",
          "protein_id": "XP_024306059.1",
          "transcript_support_level": null,
          "aa_start": 2743,
          "aa_end": null,
          "aa_length": 2819,
          "cds_start": 8228,
          "cds_end": null,
          "cds_length": 8460,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_024450291.2"
        },
        {
          "aa_ref": "A",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3",
          "gene_hgnc_id": 777,
          "hgvs_c": "c.8228C>T",
          "hgvs_p": "p.Ala2743Val",
          "transcript": "XM_047434169.1",
          "protein_id": "XP_047290125.1",
          "transcript_support_level": null,
          "aa_start": 2743,
          "aa_end": null,
          "aa_length": 2819,
          "cds_start": 8228,
          "cds_end": null,
          "cds_length": 8460,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047434169.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3-AS1",
          "gene_hgnc_id": 56033,
          "hgvs_c": "n.652G>A",
          "hgvs_p": null,
          "transcript": "ENST00000563328.5",
          "protein_id": null,
          "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": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000563328.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3-AS1",
          "gene_hgnc_id": 56033,
          "hgvs_c": "n.851G>A",
          "hgvs_p": null,
          "transcript": "ENST00000692742.2",
          "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": "ENST00000692742.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3-AS1",
          "gene_hgnc_id": 56033,
          "hgvs_c": "n.721G>A",
          "hgvs_p": null,
          "transcript": "ENST00000692937.3",
          "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": "ENST00000692937.3"
        },
        {
          "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": "ZFHX3-AS1",
          "gene_hgnc_id": 56033,
          "hgvs_c": "n.624G>A",
          "hgvs_p": null,
          "transcript": "ENST00000700870.2",
          "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": "ENST00000700870.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3-AS1",
          "gene_hgnc_id": 56033,
          "hgvs_c": "n.679G>A",
          "hgvs_p": null,
          "transcript": "ENST00000702197.2",
          "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": "ENST00000702197.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3-AS1",
          "gene_hgnc_id": 56033,
          "hgvs_c": "n.779G>A",
          "hgvs_p": null,
          "transcript": "ENST00000766492.1",
          "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": "ENST00000766492.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ZFHX3-AS1",
          "gene_hgnc_id": 56033,
          "hgvs_c": "n.755G>A",
          "hgvs_p": null,
          "transcript": "ENST00000766493.1",
          "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": "ENST00000766493.1"
        },
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        {
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          "biotype": "pseudogene",
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      ],
      "gene_symbol": "ZFHX3",
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      "dbsnp": "rs964346993",
      "frequency_reference_population": 0.000001377902,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 2,
      "gnomad_exomes_af": 0.0000013779,
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      "gnomad_exomes_ac": 2,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.09592074155807495,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.164,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.09,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.41,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 1.87,
      "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": [
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            "BP4_Moderate"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_006885.4",
          "gene_symbol": "ZFHX3",
          "hgnc_id": 777,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD,AR",
          "hgvs_c": "c.10880C>T",
          "hgvs_p": "p.Ala3627Val"
        },
        {
          "score": 0,
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          "pathogenic_score": 2,
          "criteria": [
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            "BP4_Moderate"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "ENST00000563328.5",
          "gene_symbol": "ZFHX3-AS1",
          "hgnc_id": 56033,
          "effects": [
            "non_coding_transcript_exon_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.652G>A",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "custom_annotations": null
    }
  ],
  "message": null
}