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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: 9-97546305-C-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=9&pos=97546305&ref=C&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "9",
      "pos": 97546305,
      "ref": "C",
      "alt": "A",
      "effect": "synonymous_variant",
      "transcript": "NM_003275.4",
      "consequences": [
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "NM_003275.4",
          "protein_id": "NP_003266.1",
          "transcript_support_level": null,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 359,
          "cds_start": 241,
          "cds_end": null,
          "cds_length": 1080,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000259365.9",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_003275.4"
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "ENST00000259365.9",
          "protein_id": "ENSP00000259365.3",
          "transcript_support_level": 1,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 359,
          "cds_start": 241,
          "cds_end": null,
          "cds_length": 1080,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_003275.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000259365.9"
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "ENST00000395211.6",
          "protein_id": "ENSP00000378637.2",
          "transcript_support_level": 1,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 359,
          "cds_start": 241,
          "cds_end": null,
          "cds_length": 1080,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000395211.6"
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "ENST00000950655.1",
          "protein_id": "ENSP00000620714.1",
          "transcript_support_level": null,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 436,
          "cds_start": 241,
          "cds_end": null,
          "cds_length": 1311,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000950655.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "ENST00000900211.1",
          "protein_id": "ENSP00000570270.1",
          "transcript_support_level": null,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 400,
          "cds_start": 241,
          "cds_end": null,
          "cds_length": 1203,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000900211.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "ENST00000900215.1",
          "protein_id": "ENSP00000570274.1",
          "transcript_support_level": null,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 395,
          "cds_start": 241,
          "cds_end": null,
          "cds_length": 1188,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000900215.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "ENST00000950653.1",
          "protein_id": "ENSP00000620712.1",
          "transcript_support_level": null,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 392,
          "cds_start": 241,
          "cds_end": null,
          "cds_length": 1179,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000950653.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "ENST00000900217.1",
          "protein_id": "ENSP00000570276.1",
          "transcript_support_level": null,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 390,
          "cds_start": 241,
          "cds_end": null,
          "cds_length": 1173,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000900217.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "ENST00000950654.1",
          "protein_id": "ENSP00000620713.1",
          "transcript_support_level": null,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 387,
          "cds_start": 241,
          "cds_end": null,
          "cds_length": 1164,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000950654.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "NM_001166116.2",
          "protein_id": "NP_001159588.1",
          "transcript_support_level": null,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 359,
          "cds_start": 241,
          "cds_end": null,
          "cds_length": 1080,
          "cdna_start": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "NM_001166116.2"
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
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          "strand": true,
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          ],
          "exon_rank": 3,
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          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "ENST00000900218.1",
          "protein_id": "ENSP00000570277.1",
          "transcript_support_level": null,
          "aa_start": 81,
          "aa_end": null,
          "aa_length": 359,
          "cds_start": 241,
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          "cds_length": 1080,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000900218.1"
        },
        {
          "aa_ref": "R",
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          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 3,
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          "exon_count": 10,
          "intron_rank": null,
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          "gene_symbol": "TMOD1",
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          "hgvs_c": "c.241C>A",
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          "transcript": "ENST00000950660.1",
          "protein_id": "ENSP00000620719.1",
          "transcript_support_level": null,
          "aa_start": 81,
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          "cdna_start": null,
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          "biotype": "protein_coding",
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        {
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          "gene_symbol": "TMOD1",
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          "transcript": "ENST00000950661.1",
          "protein_id": "ENSP00000620720.1",
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        },
        {
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          "protein_coding": true,
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          "consequences": [
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          "exon_rank": 3,
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          "exon_count": 10,
          "intron_rank": null,
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          "gene_symbol": "TMOD1",
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          "hgvs_c": "c.241C>A",
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          "transcript": "ENST00000950652.1",
          "protein_id": "ENSP00000620711.1",
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        {
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          "biotype": "protein_coding",
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        {
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          "exon_count": 10,
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          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
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          "transcript": "ENST00000900216.1",
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          "cds_start": 241,
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        {
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          "gene_symbol": "TMOD1",
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          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg",
          "transcript": "ENST00000900214.1",
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          "gene_symbol": "TMOD1",
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        {
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        {
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          "exon_count": 9,
          "intron_rank": null,
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          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.241C>A",
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          "transcript": "ENST00000950658.1",
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          "transcript": "ENST00000900213.1",
          "protein_id": "ENSP00000570272.1",
          "transcript_support_level": null,
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          "cds_start": null,
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          "cds_length": 927,
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        {
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          "gene_symbol": "TMOD1",
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          "transcript": "ENST00000937335.1",
          "protein_id": "ENSP00000607394.1",
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          "cds_start": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000937335.1"
        },
        {
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
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          ],
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          "exon_count": 4,
          "intron_rank": 2,
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          "gene_symbol": "TMOD1",
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          "hgvs_c": "c.120+21997C>A",
          "hgvs_p": null,
          "transcript": "ENST00000950656.1",
          "protein_id": "ENSP00000620715.1",
          "transcript_support_level": null,
          "aa_start": null,
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          "cds_start": null,
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          "cds_length": 330,
          "cdna_start": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000950656.1"
        },
        {
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          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 8,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "TMOD1",
          "gene_hgnc_id": 11871,
          "hgvs_c": "c.-131-6976C>A",
          "hgvs_p": null,
          "transcript": "XM_047423825.1",
          "protein_id": "XP_047279781.1",
          "transcript_support_level": null,
          "aa_start": null,
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          "cds_start": null,
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          "cds_length": 672,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047423825.1"
        }
      ],
      "gene_symbol": "TMOD1",
      "gene_hgnc_id": 11871,
      "dbsnp": "rs766091627",
      "frequency_reference_population": 6.84104e-7,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 1,
      "gnomad_exomes_af": 6.84104e-7,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": 1,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.14000000059604645,
      "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": -0.14,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 3.477,
      "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,BP7",
      "acmg_by_gene": [
        {
          "score": 0,
          "benign_score": 2,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4",
            "BP7"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_003275.4",
          "gene_symbol": "TMOD1",
          "hgnc_id": 11871,
          "effects": [
            "synonymous_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "c.241C>A",
          "hgvs_p": "p.Arg81Arg"
        }
      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "custom_annotations": null
    }
  ],
  "message": null
}