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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: 12-56235666-T-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=12&pos=56235666&ref=T&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "12",
      "pos": 56235666,
      "ref": "T",
      "alt": "C",
      "effect": "missense_variant",
      "transcript": "NM_173596.3",
      "consequences": [
        {
          "aa_ref": "M",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 8,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "NM_173596.3",
          "protein_id": "NP_775867.2",
          "transcript_support_level": null,
          "aa_start": 304,
          "aa_end": null,
          "aa_length": 540,
          "cds_start": 911,
          "cds_end": null,
          "cds_length": 1623,
          "cdna_start": 1153,
          "cdna_end": null,
          "cdna_length": 1980,
          "mane_select": "ENST00000454355.7",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_173596.3"
        },
        {
          "aa_ref": "M",
          "aa_alt": "T",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 8,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000454355.7",
          "protein_id": "ENSP00000405360.2",
          "transcript_support_level": 1,
          "aa_start": 304,
          "aa_end": null,
          "aa_length": 540,
          "cds_start": 911,
          "cds_end": null,
          "cds_length": 1623,
          "cdna_start": 1153,
          "cdna_end": null,
          "cdna_length": 1980,
          "mane_select": "NM_173596.3",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000454355.7"
        },
        {
          "aa_ref": "M",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000266980.8",
          "protein_id": "ENSP00000266980.4",
          "transcript_support_level": 1,
          "aa_start": 304,
          "aa_end": null,
          "aa_length": 540,
          "cds_start": 911,
          "cds_end": null,
          "cds_length": 1623,
          "cdna_start": 1204,
          "cdna_end": null,
          "cdna_length": 2031,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000266980.8"
        },
        {
          "aa_ref": "C",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.919T>C",
          "hgvs_p": "p.Cys307Arg",
          "transcript": "ENST00000881986.1",
          "protein_id": "ENSP00000552045.1",
          "transcript_support_level": null,
          "aa_start": 307,
          "aa_end": null,
          "aa_length": 550,
          "cds_start": 919,
          "cds_end": null,
          "cds_length": 1653,
          "cdna_start": 1108,
          "cdna_end": null,
          "cdna_length": 1954,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000881986.1"
        },
        {
          "aa_ref": "M",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "NM_001135195.1",
          "protein_id": "NP_001128667.1",
          "transcript_support_level": null,
          "aa_start": 304,
          "aa_end": null,
          "aa_length": 540,
          "cds_start": 911,
          "cds_end": null,
          "cds_length": 1623,
          "cdna_start": 1139,
          "cdna_end": null,
          "cdna_length": 1966,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001135195.1"
        },
        {
          "aa_ref": "M",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000881967.1",
          "protein_id": "ENSP00000552026.1",
          "transcript_support_level": null,
          "aa_start": 304,
          "aa_end": null,
          "aa_length": 540,
          "cds_start": 911,
          "cds_end": null,
          "cds_length": 1623,
          "cdna_start": 1172,
          "cdna_end": null,
          "cdna_length": 2367,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000881967.1"
        },
        {
          "aa_ref": "M",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 8,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000881968.1",
          "protein_id": "ENSP00000552027.1",
          "transcript_support_level": null,
          "aa_start": 304,
          "aa_end": null,
          "aa_length": 540,
          "cds_start": 911,
          "cds_end": null,
          "cds_length": 1623,
          "cdna_start": 1192,
          "cdna_end": null,
          "cdna_length": 2022,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000881968.1"
        },
        {
          "aa_ref": "M",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000881969.1",
          "protein_id": "ENSP00000552028.1",
          "transcript_support_level": null,
          "aa_start": 304,
          "aa_end": null,
          "aa_length": 540,
          "cds_start": 911,
          "cds_end": null,
          "cds_length": 1623,
          "cdna_start": 1133,
          "cdna_end": null,
          "cdna_length": 1962,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000881969.1"
        },
        {
          "aa_ref": "M",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 8,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000881970.1",
          "protein_id": "ENSP00000552029.1",
          "transcript_support_level": null,
          "aa_start": 304,
          "aa_end": null,
          "aa_length": 540,
          "cds_start": 911,
          "cds_end": null,
          "cds_length": 1623,
          "cdna_start": 1258,
          "cdna_end": null,
          "cdna_length": 2089,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000881970.1"
        },
        {
          "aa_ref": "M",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000881971.1",
          "protein_id": "ENSP00000552030.1",
          "transcript_support_level": null,
          "aa_start": 304,
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          "aa_length": 540,
          "cds_start": 911,
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          "cdna_start": 1038,
          "cdna_end": null,
          "cdna_length": 1868,
          "mane_select": null,
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "M",
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          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
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          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000881972.1",
          "protein_id": "ENSP00000552031.1",
          "transcript_support_level": null,
          "aa_start": 304,
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          "aa_length": 540,
          "cds_start": 911,
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          "cds_length": 1623,
          "cdna_start": 1120,
          "cdna_end": null,
          "cdna_length": 1944,
          "mane_select": null,
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "M",
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          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 8,
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          "intron_rank": null,
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          "gene_symbol": "SLC39A5",
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          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000881974.1",
          "protein_id": "ENSP00000552033.1",
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          "cds_start": 911,
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          "cdna_start": 1173,
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        {
          "aa_ref": "M",
          "aa_alt": "T",
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          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 8,
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          "intron_rank": null,
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          "gene_symbol": "SLC39A5",
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          "hgvs_c": "c.911T>C",
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          "transcript": "ENST00000881977.1",
          "protein_id": "ENSP00000552036.1",
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          "cds_start": 911,
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          "biotype": "protein_coding",
          "feature": "ENST00000881977.1"
        },
        {
          "aa_ref": "M",
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 7,
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          "exon_count": 12,
          "intron_rank": null,
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          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000881978.1",
          "protein_id": "ENSP00000552037.1",
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        {
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          "intron_rank": null,
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          "gene_symbol": "SLC39A5",
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          "hgvs_c": "c.911T>C",
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          "transcript": "ENST00000881979.1",
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000881979.1"
        },
        {
          "aa_ref": "M",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          "exon_rank": 7,
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          "exon_count": 12,
          "intron_rank": null,
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          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000881980.1",
          "protein_id": "ENSP00000552039.1",
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          "cdna_length": 1981,
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        },
        {
          "aa_ref": "M",
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          ],
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          "intron_rank": null,
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          "gene_symbol": "SLC39A5",
          "gene_hgnc_id": 20502,
          "hgvs_c": "c.911T>C",
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          "transcript": "ENST00000881981.1",
          "protein_id": "ENSP00000552040.1",
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        {
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        {
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          "gene_symbol": "SLC39A5",
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          "transcript": "ENST00000881992.1",
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "M",
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          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
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          "exon_count": 10,
          "intron_rank": null,
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          "gene_symbol": "SLC39A5",
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          "hgvs_c": "c.911T>C",
          "hgvs_p": "p.Met304Thr",
          "transcript": "ENST00000881995.1",
          "protein_id": "ENSP00000552054.1",
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      "gnomad_genomes_ac": null,
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      "computational_score_selected": 0.5799535512924194,
      "computational_prediction_selected": "Uncertain_significance",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.687,
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      "alphamissense_score": 0.0665,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.67,
      "bayesdelnoaf_prediction": "Benign",
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      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0,
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      "acmg_score": 3,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM2,PP5",
      "acmg_by_gene": [
        {
          "score": 3,
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          "verdict": "Uncertain_significance",
          "transcript": "NM_173596.3",
          "gene_symbol": "SLC39A5",
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          "effects": [
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      ],
      "clinvar_disease": " autosomal dominant,Myopia 24",
      "clinvar_classification": "Pathogenic",
      "clinvar_review_status": "no assertion criteria provided",
      "clinvar_submissions_summary": "null",
      "phenotype_combined": "Myopia 24, autosomal dominant",
      "pathogenicity_classification_combined": "Pathogenic",
      "custom_annotations": null
    }
  ],
  "message": null
}
For research and educational, non-commercial use only. Not for clinical or diagnostic use. GeneBe does not provide medical advice. Data use for AI modeling is prohibited: if used, the cost is $0.001 per byte of downloaded uncompressed data.