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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: 12-48124481-A-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=12&pos=48124481&ref=A&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "12",
      "pos": 48124481,
      "ref": "A",
      "alt": "C",
      "effect": "intron_variant",
      "transcript": "NM_001354735.1",
      "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": 23,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.85+1622A>C",
          "hgvs_p": null,
          "transcript": "NM_000289.6",
          "protein_id": "NP_000280.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 780,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 2343,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000359794.11",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_000289.6"
        },
        {
          "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": 23,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.85+1622A>C",
          "hgvs_p": null,
          "transcript": "ENST00000359794.11",
          "protein_id": "ENSP00000352842.5",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 780,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 2343,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_000289.6",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000359794.11"
        },
        {
          "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": 23,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.85+1622A>C",
          "hgvs_p": null,
          "transcript": "ENST00000312352.11",
          "protein_id": "ENSP00000309438.7",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 780,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 2343,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000312352.11"
        },
        {
          "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": 22,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.85+1622A>C",
          "hgvs_p": null,
          "transcript": "ENST00000547587.5",
          "protein_id": "ENSP00000449426.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 780,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 2343,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000547587.5"
        },
        {
          "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": 22,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "n.157+1622A>C",
          "hgvs_p": null,
          "transcript": "ENST00000546964.5",
          "protein_id": null,
          "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": "retained_intron",
          "feature": "ENST00000546964.5"
        },
        {
          "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": 26,
          "intron_rank": 5,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.394+1622A>C",
          "hgvs_p": null,
          "transcript": "NM_001354735.1",
          "protein_id": "NP_001341664.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 883,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 2652,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001354735.1"
        },
        {
          "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": 26,
          "intron_rank": 5,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.394+1622A>C",
          "hgvs_p": null,
          "transcript": "NM_001354736.1",
          "protein_id": "NP_001341665.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 883,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 2652,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001354736.1"
        },
        {
          "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": 26,
          "intron_rank": 5,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.394+1622A>C",
          "hgvs_p": null,
          "transcript": "ENST00000642730.1",
          "protein_id": "ENSP00000496597.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 883,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 2652,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000642730.1"
        },
        {
          "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": 24,
          "intron_rank": 3,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.307+1622A>C",
          "hgvs_p": null,
          "transcript": "ENST00000550257.7",
          "protein_id": "ENSP00000447997.3",
          "transcript_support_level": 4,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 854,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 2565,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000550257.7"
        },
        {
          "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": 25,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.298+1622A>C",
          "hgvs_p": null,
          "transcript": "NM_001166686.2",
          "protein_id": "NP_001160158.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 851,
          "cds_start": null,
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          "cds_length": 2556,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
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        },
        {
          "aa_ref": null,
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          "canonical": false,
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          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 25,
          "intron_rank": 4,
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          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.298+1622A>C",
          "hgvs_p": null,
          "transcript": "NM_001354737.1",
          "protein_id": "NP_001341666.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 851,
          "cds_start": null,
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          "cds_length": 2556,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001354737.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
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          "exon_count": 25,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.298+1622A>C",
          "hgvs_p": null,
          "transcript": "NM_001354738.1",
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          "cds_start": null,
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          "cdna_start": null,
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          "mane_select": null,
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        {
          "aa_ref": null,
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          ],
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          "gene_symbol": "PFKM",
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          "hgvs_c": "c.298+1622A>C",
          "hgvs_p": null,
          "transcript": "NM_001354739.1",
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        {
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          "intron_rank": 4,
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          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.298+1622A>C",
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          "transcript": "ENST00000340802.12",
          "protein_id": "ENSP00000345771.6",
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        {
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        {
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          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.298+1622A>C",
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          "protein_id": "NP_001425987.1",
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        {
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          "gene_symbol": "PFKM",
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          "hgvs_c": "c.85+1622A>C",
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          "transcript": "ENST00000942241.1",
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        {
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        {
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          "exon_count": 23,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "c.85+1622A>C",
          "hgvs_p": null,
          "transcript": "ENST00000873532.1",
          "protein_id": "ENSP00000543591.1",
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
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        },
        {
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          ],
          "exon_rank": null,
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          "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_148958.2"
        },
        {
          "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": 22,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "PFKM",
          "gene_hgnc_id": 8877,
          "hgvs_c": "n.136+1622A>C",
          "hgvs_p": null,
          "transcript": "NR_148959.2",
          "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_148959.2"
        }
      ],
      "gene_symbol": "PFKM",
      "gene_hgnc_id": 8877,
      "dbsnp": "rs10875746",
      "frequency_reference_population": 0.21149701,
      "hom_count_reference_population": 3536,
      "allele_count_reference_population": 32178,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": 0.211497,
      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": 32178,
      "gnomad_exomes_homalt": null,
      "gnomad_genomes_homalt": 3536,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.8999999761581421,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.9,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": -0.259,
      "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": -12,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BA1",
      "acmg_by_gene": [
        {
          "score": -12,
          "benign_score": 12,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BA1"
          ],
          "verdict": "Benign",
          "transcript": "NM_001354735.1",
          "gene_symbol": "PFKM",
          "hgnc_id": 8877,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.394+1622A>C",
          "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
}