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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: 2-47073814-T-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=47073814&ref=T&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "2",
      "pos": 47073814,
      "ref": "T",
      "alt": "C",
      "effect": "missense_variant",
      "transcript": "NM_001288951.2",
      "consequences": [
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2468T>C",
          "hgvs_p": "p.Leu823Pro",
          "transcript": "NM_020458.4",
          "protein_id": "NP_065191.2",
          "transcript_support_level": null,
          "aa_start": 823,
          "aa_end": null,
          "aa_length": 858,
          "cds_start": 2468,
          "cds_end": null,
          "cds_length": 2577,
          "cdna_start": 2786,
          "cdna_end": null,
          "cdna_length": 5095,
          "mane_select": "ENST00000319190.11",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_020458.4"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2468T>C",
          "hgvs_p": "p.Leu823Pro",
          "transcript": "ENST00000319190.11",
          "protein_id": "ENSP00000316699.5",
          "transcript_support_level": 2,
          "aa_start": 823,
          "aa_end": null,
          "aa_length": 858,
          "cds_start": 2468,
          "cds_end": null,
          "cds_length": 2577,
          "cdna_start": 2786,
          "cdna_end": null,
          "cdna_length": 5095,
          "mane_select": "NM_020458.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000319190.11"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2540T>C",
          "hgvs_p": "p.Leu847Pro",
          "transcript": "ENST00000394850.6",
          "protein_id": "ENSP00000378320.2",
          "transcript_support_level": 1,
          "aa_start": 847,
          "aa_end": null,
          "aa_length": 882,
          "cds_start": 2540,
          "cds_end": null,
          "cds_length": 2649,
          "cdna_start": 2796,
          "cdna_end": null,
          "cdna_length": 4306,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000394850.6"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "n.*2217T>C",
          "hgvs_p": null,
          "transcript": "ENST00000409825.5",
          "protein_id": "ENSP00000386521.1",
          "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": 4739,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000409825.5"
        },
        {
          "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": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "n.*1317T>C",
          "hgvs_p": null,
          "transcript": "ENST00000441914.5",
          "protein_id": "ENSP00000393022.1",
          "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": 2418,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000441914.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "n.1575T>C",
          "hgvs_p": null,
          "transcript": "ENST00000484061.5",
          "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": 3085,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "retained_intron",
          "feature": "ENST00000484061.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "n.1872T>C",
          "hgvs_p": null,
          "transcript": "ENST00000491786.5",
          "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": 3615,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "retained_intron",
          "feature": "ENST00000491786.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "n.*2217T>C",
          "hgvs_p": null,
          "transcript": "ENST00000409825.5",
          "protein_id": "ENSP00000386521.1",
          "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": 4739,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000409825.5"
        },
        {
          "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": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "n.*1317T>C",
          "hgvs_p": null,
          "transcript": "ENST00000441914.5",
          "protein_id": "ENSP00000393022.1",
          "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": 2418,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000441914.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": true,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": 8,
          "intron_rank_end": null,
          "gene_symbol": "ENSG00000273269",
          "gene_hgnc_id": null,
          "hgvs_c": "n.*656-7677A>G",
          "hgvs_p": null,
          "transcript": "ENST00000422269.1",
          "protein_id": "ENSP00000476793.1",
          "transcript_support_level": 2,
          "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": 983,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000422269.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2597T>C",
          "hgvs_p": "p.Leu866Pro",
          "transcript": "ENST00000956434.1",
          "protein_id": "ENSP00000626493.1",
          "transcript_support_level": null,
          "aa_start": 866,
          "aa_end": null,
          "aa_length": 901,
          "cds_start": 2597,
          "cds_end": null,
          "cds_length": 2706,
          "cdna_start": 2912,
          "cdna_end": null,
          "cdna_length": 4648,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000956434.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2540T>C",
          "hgvs_p": "p.Leu847Pro",
          "transcript": "NM_001288951.2",
          "protein_id": "NP_001275880.1",
          "transcript_support_level": null,
          "aa_start": 847,
          "aa_end": null,
          "aa_length": 882,
          "cds_start": 2540,
          "cds_end": null,
          "cds_length": 2649,
          "cdna_start": 2858,
          "cdna_end": null,
          "cdna_length": 5167,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001288951.2"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2540T>C",
          "hgvs_p": "p.Leu847Pro",
          "transcript": "ENST00000956433.1",
          "protein_id": "ENSP00000626492.1",
          "transcript_support_level": null,
          "aa_start": 847,
          "aa_end": null,
          "aa_length": 882,
          "cds_start": 2540,
          "cds_end": null,
          "cds_length": 2649,
          "cdna_start": 2837,
          "cdna_end": null,
          "cdna_length": 5140,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000956433.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2444T>C",
          "hgvs_p": "p.Leu815Pro",
          "transcript": "ENST00000895463.1",
          "protein_id": "ENSP00000565522.1",
          "transcript_support_level": null,
          "aa_start": 815,
          "aa_end": null,
          "aa_length": 850,
          "cds_start": 2444,
          "cds_end": null,
          "cds_length": 2553,
          "cdna_start": 2760,
          "cdna_end": null,
          "cdna_length": 3087,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000895463.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2414T>C",
          "hgvs_p": "p.Leu805Pro",
          "transcript": "ENST00000895461.1",
          "protein_id": "ENSP00000565520.1",
          "transcript_support_level": null,
          "aa_start": 805,
          "aa_end": null,
          "aa_length": 840,
          "cds_start": 2414,
          "cds_end": null,
          "cds_length": 2523,
          "cdna_start": 2730,
          "cdna_end": null,
          "cdna_length": 3060,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000895461.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2366T>C",
          "hgvs_p": "p.Leu789Pro",
          "transcript": "NM_001288953.2",
          "protein_id": "NP_001275882.1",
          "transcript_support_level": null,
          "aa_start": 789,
          "aa_end": null,
          "aa_length": 824,
          "cds_start": 2366,
          "cds_end": null,
          "cds_length": 2475,
          "cdna_start": 3090,
          "cdna_end": null,
          "cdna_length": 5399,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001288953.2"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2366T>C",
          "hgvs_p": "p.Leu789Pro",
          "transcript": "ENST00000409245.5",
          "protein_id": "ENSP00000386307.1",
          "transcript_support_level": 2,
          "aa_start": 789,
          "aa_end": null,
          "aa_length": 824,
          "cds_start": 2366,
          "cds_end": null,
          "cds_length": 2475,
          "cdna_start": 2799,
          "cdna_end": null,
          "cdna_length": 3033,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000409245.5"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2351T>C",
          "hgvs_p": "p.Leu784Pro",
          "transcript": "ENST00000895460.1",
          "protein_id": "ENSP00000565519.1",
          "transcript_support_level": null,
          "aa_start": 784,
          "aa_end": null,
          "aa_length": 819,
          "cds_start": 2351,
          "cds_end": null,
          "cds_length": 2460,
          "cdna_start": 2664,
          "cdna_end": null,
          "cdna_length": 4970,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000895460.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2333T>C",
          "hgvs_p": "p.Leu778Pro",
          "transcript": "ENST00000895464.1",
          "protein_id": "ENSP00000565523.1",
          "transcript_support_level": null,
          "aa_start": 778,
          "aa_end": null,
          "aa_length": 813,
          "cds_start": 2333,
          "cds_end": null,
          "cds_length": 2442,
          "cdna_start": 2649,
          "cdna_end": null,
          "cdna_length": 2976,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000895464.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "P",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 18,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TTC7A",
          "gene_hgnc_id": 19750,
          "hgvs_c": "c.2246T>C",
          "hgvs_p": "p.Leu749Pro",
          "transcript": "ENST00000937410.1",
          "protein_id": "ENSP00000607469.1",
          "transcript_support_level": null,
          "aa_start": 749,
          "aa_end": null,
          "aa_length": 784,
          "cds_start": 2246,
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      ],
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      "gene_hgnc_id": 19750,
      "dbsnp": "rs587776972",
      "frequency_reference_population": 0.000012394876,
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      "computational_score_selected": 0.9293136596679688,
      "computational_prediction_selected": "Pathogenic",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.858,
      "revel_prediction": "Pathogenic",
      "alphamissense_score": 0.9767,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": 0.3,
      "bayesdelnoaf_prediction": "Pathogenic",
      "phylop100way_score": 7.988,
      "phylop100way_prediction": "Pathogenic",
      "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,
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      "acmg_score": 12,
      "acmg_classification": "Pathogenic",
      "acmg_criteria": "PM2,PP3_Moderate,PP5_Very_Strong",
      "acmg_by_gene": [
        {
          "score": 12,
          "benign_score": 0,
          "pathogenic_score": 12,
          "criteria": [
            "PM2",
            "PP3_Moderate",
            "PP5_Very_Strong"
          ],
          "verdict": "Pathogenic",
          "transcript": "NM_001288951.2",
          "gene_symbol": "TTC7A",
          "hgnc_id": 19750,
          "effects": [
            "missense_variant"
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          "inheritance_mode": "AR",
          "hgvs_c": "c.2540T>C",
          "hgvs_p": "p.Leu847Pro"
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        {
          "score": 12,
          "benign_score": 0,
          "pathogenic_score": 12,
          "criteria": [
            "PM2",
            "PP3_Moderate",
            "PP5_Very_Strong"
          ],
          "verdict": "Pathogenic",
          "transcript": "ENST00000422269.1",
          "gene_symbol": "ENSG00000273269",
          "hgnc_id": null,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.*656-7677A>G",
          "hgvs_p": null
        },
        {
          "score": 12,
          "benign_score": 0,
          "pathogenic_score": 12,
          "criteria": [
            "PM2",
            "PP3_Moderate",
            "PP5_Very_Strong"
          ],
          "verdict": "Pathogenic",
          "transcript": "ENST00000464527.2",
          "gene_symbol": "STPG4",
          "hgnc_id": 26850,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "n.399-7677A>G",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "Gastrointestinal defect and immunodeficiency syndrome,Gastrointestinal defects and immunodeficiency syndrome 1,Multiple gastrointestinal atresias,not provided",
      "clinvar_classification": "Pathogenic/Likely pathogenic",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "P:1 LP:3",
      "phenotype_combined": "not provided|Gastrointestinal defects and immunodeficiency syndrome 1|Multiple gastrointestinal atresias|Gastrointestinal defect and immunodeficiency syndrome",
      "pathogenicity_classification_combined": "Pathogenic/Likely pathogenic",
      "custom_annotations": null
    }
  ],
  "message": null
}
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