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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: 22-31906291-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=22&pos=31906291&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "22",
      "pos": 31906291,
      "ref": "C",
      "alt": "T",
      "effect": "stop_gained",
      "transcript": "NM_001242896.3",
      "consequences": [
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 43,
          "exon_rank_end": null,
          "exon_count": 43,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4606C>T",
          "hgvs_p": "p.Gln1536*",
          "transcript": "NM_001242896.3",
          "protein_id": "NP_001229825.1",
          "transcript_support_level": null,
          "aa_start": 1536,
          "aa_end": null,
          "aa_length": 1603,
          "cds_start": 4606,
          "cds_end": null,
          "cds_length": 4812,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000651528.2",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001242896.3"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 43,
          "exon_rank_end": null,
          "exon_count": 43,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4606C>T",
          "hgvs_p": "p.Gln1536*",
          "transcript": "ENST00000651528.2",
          "protein_id": "ENSP00000498382.1",
          "transcript_support_level": null,
          "aa_start": 1536,
          "aa_end": null,
          "aa_length": 1603,
          "cds_start": 4606,
          "cds_end": null,
          "cds_length": 4812,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_001242896.3",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000651528.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 43,
          "exon_rank_end": null,
          "exon_count": 43,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4606C>T",
          "hgvs_p": "p.Gln1536*",
          "transcript": "ENST00000382112.8",
          "protein_id": "ENSP00000371546.4",
          "transcript_support_level": 1,
          "aa_start": 1536,
          "aa_end": null,
          "aa_length": 1603,
          "cds_start": 4606,
          "cds_end": null,
          "cds_length": 4812,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000382112.8"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 42,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4522C>T",
          "hgvs_p": "p.Gln1508*",
          "transcript": "ENST00000433147.2",
          "protein_id": "ENSP00000410544.2",
          "transcript_support_level": 1,
          "aa_start": 1508,
          "aa_end": null,
          "aa_length": 1575,
          "cds_start": 4522,
          "cds_end": null,
          "cds_length": 4728,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000433147.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 42,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4513C>T",
          "hgvs_p": "p.Gln1505*",
          "transcript": "ENST00000400248.7",
          "protein_id": "ENSP00000383107.1",
          "transcript_support_level": 1,
          "aa_start": 1505,
          "aa_end": null,
          "aa_length": 1572,
          "cds_start": 4513,
          "cds_end": null,
          "cds_length": 4719,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000400248.7"
        },
        {
          "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": 21,
          "intron_rank": 20,
          "intron_rank_end": null,
          "gene_symbol": "ENSG00000285404",
          "gene_hgnc_id": null,
          "hgvs_c": "c.1787-49848C>T",
          "hgvs_p": null,
          "transcript": "ENST00000646701.1",
          "protein_id": "ENSP00000496158.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 600,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 1803,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000646701.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 41,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "n.*870C>T",
          "hgvs_p": null,
          "transcript": "ENST00000400246.7",
          "protein_id": "ENSP00000383105.3",
          "transcript_support_level": 1,
          "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": "ENST00000400246.7"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "n.*573C>T",
          "hgvs_p": null,
          "transcript": "ENST00000448753.6",
          "protein_id": "ENSP00000402173.1",
          "transcript_support_level": 1,
          "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": "ENST00000448753.6"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 41,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "n.*870C>T",
          "hgvs_p": null,
          "transcript": "ENST00000400246.7",
          "protein_id": "ENSP00000383105.3",
          "transcript_support_level": 1,
          "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": "ENST00000400246.7"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "n.*573C>T",
          "hgvs_p": null,
          "transcript": "ENST00000448753.6",
          "protein_id": "ENSP00000402173.1",
          "transcript_support_level": 1,
          "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": "ENST00000448753.6"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 43,
          "exon_rank_end": null,
          "exon_count": 43,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4630C>T",
          "hgvs_p": "p.Gln1544*",
          "transcript": "ENST00000915004.1",
          "protein_id": "ENSP00000585063.1",
          "transcript_support_level": null,
          "aa_start": 1544,
          "aa_end": null,
          "aa_length": 1611,
          "cds_start": 4630,
          "cds_end": null,
          "cds_length": 4836,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000915004.1"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 43,
          "exon_rank_end": null,
          "exon_count": 43,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4606C>T",
          "hgvs_p": "p.Gln1536*",
          "transcript": "NM_001364318.2",
          "protein_id": "NP_001351247.1",
          "transcript_support_level": null,
          "aa_start": 1536,
          "aa_end": null,
          "aa_length": 1603,
          "cds_start": 4606,
          "cds_end": null,
          "cds_length": 4812,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001364318.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 43,
          "exon_rank_end": null,
          "exon_count": 43,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4579C>T",
          "hgvs_p": "p.Gln1527*",
          "transcript": "NM_001136029.4",
          "protein_id": "NP_001129501.1",
          "transcript_support_level": null,
          "aa_start": 1527,
          "aa_end": null,
          "aa_length": 1594,
          "cds_start": 4579,
          "cds_end": null,
          "cds_length": 4785,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001136029.4"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 43,
          "exon_rank_end": null,
          "exon_count": 43,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4579C>T",
          "hgvs_p": "p.Gln1527*",
          "transcript": "ENST00000645711.1",
          "protein_id": "ENSP00000493489.1",
          "transcript_support_level": null,
          "aa_start": 1527,
          "aa_end": null,
          "aa_length": 1594,
          "cds_start": 4579,
          "cds_end": null,
          "cds_length": 4785,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000645711.1"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 43,
          "exon_rank_end": null,
          "exon_count": 43,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4579C>T",
          "hgvs_p": "p.Gln1527*",
          "transcript": "ENST00000915008.1",
          "protein_id": "ENSP00000585067.1",
          "transcript_support_level": null,
          "aa_start": 1527,
          "aa_end": null,
          "aa_length": 1594,
          "cds_start": 4579,
          "cds_end": null,
          "cds_length": 4785,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000915008.1"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 41,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4564C>T",
          "hgvs_p": "p.Gln1522*",
          "transcript": "ENST00000645407.1",
          "protein_id": "ENSP00000496252.1",
          "transcript_support_level": null,
          "aa_start": 1522,
          "aa_end": null,
          "aa_length": 1589,
          "cds_start": 4564,
          "cds_end": null,
          "cds_length": 4770,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000645407.1"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 42,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4540C>T",
          "hgvs_p": "p.Gln1514*",
          "transcript": "NM_001363852.2",
          "protein_id": "NP_001350781.1",
          "transcript_support_level": null,
          "aa_start": 1514,
          "aa_end": null,
          "aa_length": 1581,
          "cds_start": 4540,
          "cds_end": null,
          "cds_length": 4746,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001363852.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 42,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4540C>T",
          "hgvs_p": "p.Gln1514*",
          "transcript": "NM_001364320.2",
          "protein_id": "NP_001351249.1",
          "transcript_support_level": null,
          "aa_start": 1514,
          "aa_end": null,
          "aa_length": 1581,
          "cds_start": 4540,
          "cds_end": null,
          "cds_length": 4746,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001364320.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 42,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4540C>T",
          "hgvs_p": "p.Gln1514*",
          "transcript": "ENST00000400249.7",
          "protein_id": "ENSP00000383108.3",
          "transcript_support_level": 5,
          "aa_start": 1514,
          "aa_end": null,
          "aa_length": 1581,
          "cds_start": 4540,
          "cds_end": null,
          "cds_length": 4746,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000400249.7"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 42,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DEPDC5",
          "gene_hgnc_id": 18423,
          "hgvs_c": "c.4540C>T",
          "hgvs_p": "p.Gln1514*",
          "transcript": "ENST00000644331.1",
          "protein_id": "ENSP00000494406.1",
          "transcript_support_level": null,
          "aa_start": 1514,
          "aa_end": null,
          "aa_length": 1581,
          "cds_start": 4540,
          "cds_end": null,
          "cds_length": 4746,
          "cdna_start": null,
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      ],
      "gene_symbol": "DEPDC5",
      "gene_hgnc_id": 18423,
      "dbsnp": "rs886039274",
      "frequency_reference_population": null,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 0,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": null,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.37289857864379883,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.167,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.1326,
      "alphamissense_prediction": "Benign",
      "bayesdelnoaf_score": 0.65,
      "bayesdelnoaf_prediction": "Pathogenic",
      "phylop100way_score": 5.788,
      "phylop100way_prediction": "Uncertain_significance",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
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      "apogee2_score": null,
      "apogee2_prediction": null,
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      "acmg_score": 6,
      "acmg_classification": "Likely_pathogenic",
      "acmg_criteria": "PVS1_Strong,PM2",
      "acmg_by_gene": [
        {
          "score": 6,
          "benign_score": 0,
          "pathogenic_score": 6,
          "criteria": [
            "PVS1_Strong",
            "PM2"
          ],
          "verdict": "Likely_pathogenic",
          "transcript": "NM_001242896.3",
          "gene_symbol": "DEPDC5",
          "hgnc_id": 18423,
          "effects": [
            "stop_gained"
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          "inheritance_mode": "AD",
          "hgvs_c": "c.4606C>T",
          "hgvs_p": "p.Gln1536*"
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        {
          "score": 1,
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          "criteria": [
            "PM2",
            "BP4"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "ENST00000646701.1",
          "gene_symbol": "ENSG00000285404",
          "hgnc_id": null,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "c.1787-49848C>T",
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      ],
      "clinvar_disease": " familial focal, with variable foci 1,Epilepsy",
      "clinvar_classification": "not provided",
      "clinvar_review_status": "no classification provided",
      "clinvar_submissions_summary": "O:1",
      "phenotype_combined": "Epilepsy, familial focal, with variable foci 1",
      "pathogenicity_classification_combined": "not provided",
      "custom_annotations": null
    }
  ],
  "message": null
}