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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: 2-63856320-A-G (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=63856320&ref=A&alt=G&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "2",
      "pos": 63856320,
      "ref": "A",
      "alt": "G",
      "effect": "missense_variant",
      "transcript": "NM_006759.4",
      "consequences": [
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000394417.7",
          "protein_id": "ENSP00000377939.2",
          "transcript_support_level": 1,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 497,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 1494,
          "cdna_start": 279,
          "cdna_end": null,
          "cdna_length": 2105,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000467648.6",
          "protein_id": "ENSP00000420793.2",
          "transcript_support_level": 1,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 497,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 1494,
          "cdna_start": 340,
          "cdna_end": null,
          "cdna_length": 2057,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.34A>G",
          "hgvs_p": "p.Met12Val",
          "transcript": "NM_006759.4",
          "protein_id": "NP_006750.3",
          "transcript_support_level": null,
          "aa_start": 12,
          "aa_end": null,
          "aa_length": 508,
          "cds_start": 34,
          "cds_end": null,
          "cds_length": 1527,
          "cdna_start": 324,
          "cdna_end": null,
          "cdna_length": 2150,
          "mane_select": "ENST00000337130.10",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.34A>G",
          "hgvs_p": "p.Met12Val",
          "transcript": "ENST00000337130.10",
          "protein_id": "ENSP00000338703.5",
          "transcript_support_level": 1,
          "aa_start": 12,
          "aa_end": null,
          "aa_length": 508,
          "cds_start": 34,
          "cds_end": null,
          "cds_length": 1527,
          "cdna_start": 324,
          "cdna_end": null,
          "cdna_length": 2150,
          "mane_select": "NM_006759.4",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "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": 7,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "n.354+14116A>G",
          "hgvs_p": null,
          "transcript": "ENST00000475550.5",
          "protein_id": null,
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4397,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "NM_001001521.2",
          "protein_id": "NP_001001521.1",
          "transcript_support_level": null,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 497,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 1494,
          "cdna_start": 279,
          "cdna_end": null,
          "cdna_length": 2105,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "NM_001377524.1",
          "protein_id": "NP_001364453.1",
          "transcript_support_level": null,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 497,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 1494,
          "cdna_start": 385,
          "cdna_end": null,
          "cdna_length": 2211,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "NM_001377525.1",
          "protein_id": "NP_001364454.1",
          "transcript_support_level": null,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 497,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 1494,
          "cdna_start": 340,
          "cdna_end": null,
          "cdna_length": 2166,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000613823.2",
          "protein_id": "ENSP00000482043.2",
          "transcript_support_level": 5,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 463,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 1392,
          "cdna_start": 250,
          "cdna_end": null,
          "cdna_length": 1983,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000677841.1",
          "protein_id": "ENSP00000502898.1",
          "transcript_support_level": null,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 460,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 1383,
          "cdna_start": 212,
          "cdna_end": null,
          "cdna_length": 1769,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000491621.5",
          "protein_id": "ENSP00000420342.1",
          "transcript_support_level": 3,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 211,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 638,
          "cdna_start": 116,
          "cdna_end": null,
          "cdna_length": 753,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000475462.5",
          "protein_id": "ENSP00000419335.1",
          "transcript_support_level": 4,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 169,
          "cds_start": 1,
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          "cds_length": 512,
          "cdna_start": 49,
          "cdna_end": null,
          "cdna_length": 560,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000472047.5",
          "protein_id": "ENSP00000419238.1",
          "transcript_support_level": 4,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 149,
          "cds_start": 1,
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          "cds_length": 452,
          "cdna_start": 107,
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          "cdna_length": 558,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000488245.6",
          "protein_id": "ENSP00000419442.2",
          "transcript_support_level": 5,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 134,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 406,
          "cdna_start": 379,
          "cdna_end": null,
          "cdna_length": 784,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000482668.5",
          "protein_id": "ENSP00000419548.1",
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          "aa_start": 1,
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          "cds_start": 1,
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          "cdna_start": 332,
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          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000626380.2",
          "protein_id": "ENSP00000486332.1",
          "transcript_support_level": 5,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 52,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 159,
          "cdna_start": 118,
          "cdna_end": null,
          "cdna_length": 276,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "ENST00000480679.5",
          "protein_id": "ENSP00000417286.1",
          "transcript_support_level": 5,
          "aa_start": 1,
          "aa_end": null,
          "aa_length": 37,
          "cds_start": 1,
          "cds_end": null,
          "cds_length": 114,
          "cdna_start": 392,
          "cdna_end": null,
          "cdna_length": 505,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "start_lost"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.1A>G",
          "hgvs_p": "p.Met1?",
          "transcript": "XM_024453120.2",
          "protein_id": "XP_024308888.1",
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          "aa_length": 497,
          "cds_start": 1,
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          "cdna_start": 350,
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          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.61A>G",
          "hgvs_p": "p.Met21Val",
          "transcript": "ENST00000445915.6",
          "protein_id": "ENSP00000411803.2",
          "transcript_support_level": 2,
          "aa_start": 21,
          "aa_end": null,
          "aa_length": 517,
          "cds_start": 61,
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          "cds_length": 1554,
          "cdna_start": 128,
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          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "M",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "c.34A>G",
          "hgvs_p": "p.Met12Val",
          "transcript": "ENST00000484142.2",
          "protein_id": "ENSP00000418375.2",
          "transcript_support_level": 4,
          "aa_start": 12,
          "aa_end": null,
          "aa_length": 59,
          "cds_start": 34,
          "cds_end": null,
          "cds_length": 182,
          "cdna_start": 440,
          "cdna_end": null,
          "cdna_length": 588,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 2,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "UGP2",
          "gene_hgnc_id": 12527,
          "hgvs_c": "n.412A>G",
          "hgvs_p": null,
          "transcript": "ENST00000465515.1",
          "protein_id": null,
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
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      ],
      "gene_symbol": "UGP2",
      "gene_hgnc_id": 12527,
      "dbsnp": "rs768305634",
      "frequency_reference_population": 0.000038441696,
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      "gnomad_exomes_af": 0.0000390245,
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      "gnomad_exomes_homalt": 0,
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      "computational_score_selected": 0.12224775552749634,
      "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",
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      "bayesdelnoaf_score": -0.12,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 3.179,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
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      "apogee2_score": null,
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      "acmg_score": 7,
      "acmg_classification": "Likely_pathogenic",
      "acmg_criteria": "PP5_Very_Strong,BP4",
      "acmg_by_gene": [
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          "verdict": "Likely_pathogenic",
          "transcript": "NM_006759.4",
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          "effects": [
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          "hgvs_p": "p.Met12Val"
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      ],
      "clinvar_disease": " 83,D-6618,Developmental and epileptic encephalopathy,not provided",
      "clinvar_classification": "Pathogenic/Likely pathogenic",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "P:8 LP:2",
      "phenotype_combined": "Developmental and epileptic encephalopathy, 83|not provided|D-6618",
      "pathogenicity_classification_combined": "Pathogenic/Likely pathogenic",
      "custom_annotations": null
    }
  ],
  "message": null
}