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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: 5-87390844-AAAAC-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=5&pos=87390844&ref=AAAAC&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "5",
      "pos": 87390844,
      "ref": "AAAAC",
      "alt": "A",
      "effect": "frameshift_variant",
      "transcript": "NM_002890.3",
      "consequences": [
        {
          "aa_ref": "QN",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 25,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "c.3109_3112delCAAA",
          "hgvs_p": "p.Gln1037fs",
          "transcript": "NM_002890.3",
          "protein_id": "NP_002881.1",
          "transcript_support_level": null,
          "aa_start": 1037,
          "aa_end": null,
          "aa_length": 1047,
          "cds_start": 3109,
          "cds_end": null,
          "cds_length": 3144,
          "cdna_start": 3678,
          "cdna_end": null,
          "cdna_length": 4746,
          "mane_select": "ENST00000274376.11",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_002890.3"
        },
        {
          "aa_ref": "QN",
          "aa_alt": null,
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 25,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "c.3109_3112delCAAA",
          "hgvs_p": "p.Gln1037fs",
          "transcript": "ENST00000274376.11",
          "protein_id": "ENSP00000274376.6",
          "transcript_support_level": 1,
          "aa_start": 1037,
          "aa_end": null,
          "aa_length": 1047,
          "cds_start": 3109,
          "cds_end": null,
          "cds_length": 3144,
          "cdna_start": 3678,
          "cdna_end": null,
          "cdna_length": 4746,
          "mane_select": "NM_002890.3",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000274376.11"
        },
        {
          "aa_ref": "QN",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 25,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "c.2578_2581delCAAA",
          "hgvs_p": "p.Gln860fs",
          "transcript": "ENST00000456692.6",
          "protein_id": "ENSP00000411221.2",
          "transcript_support_level": 1,
          "aa_start": 860,
          "aa_end": null,
          "aa_length": 870,
          "cds_start": 2578,
          "cds_end": null,
          "cds_length": 2613,
          "cdna_start": 2693,
          "cdna_end": null,
          "cdna_length": 3776,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000456692.6"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 26,
          "exon_rank_end": null,
          "exon_count": 26,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "n.*1724_*1727delCAAA",
          "hgvs_p": null,
          "transcript": "ENST00000515800.6",
          "protein_id": "ENSP00000423395.2",
          "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": 4979,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000515800.6"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 26,
          "exon_rank_end": null,
          "exon_count": 26,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "n.*1724_*1727delCAAA",
          "hgvs_p": null,
          "transcript": "ENST00000515800.6",
          "protein_id": "ENSP00000423395.2",
          "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": 4979,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000515800.6"
        },
        {
          "aa_ref": "QN",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 25,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "c.3127_3130delCAAA",
          "hgvs_p": "p.Gln1043fs",
          "transcript": "ENST00000888490.1",
          "protein_id": "ENSP00000558549.1",
          "transcript_support_level": null,
          "aa_start": 1043,
          "aa_end": null,
          "aa_length": 1053,
          "cds_start": 3127,
          "cds_end": null,
          "cds_length": 3162,
          "cdna_start": 3692,
          "cdna_end": null,
          "cdna_length": 4763,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000888490.1"
        },
        {
          "aa_ref": "QN",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 25,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "c.3106_3109delCAAA",
          "hgvs_p": "p.Gln1036fs",
          "transcript": "ENST00000888488.1",
          "protein_id": "ENSP00000558547.1",
          "transcript_support_level": null,
          "aa_start": 1036,
          "aa_end": null,
          "aa_length": 1046,
          "cds_start": 3106,
          "cds_end": null,
          "cds_length": 3141,
          "cdna_start": 3780,
          "cdna_end": null,
          "cdna_length": 4848,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000888488.1"
        },
        {
          "aa_ref": "QN",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "c.3022_3025delCAAA",
          "hgvs_p": "p.Gln1008fs",
          "transcript": "ENST00000888489.1",
          "protein_id": "ENSP00000558548.1",
          "transcript_support_level": null,
          "aa_start": 1008,
          "aa_end": null,
          "aa_length": 1018,
          "cds_start": 3022,
          "cds_end": null,
          "cds_length": 3057,
          "cdna_start": 3612,
          "cdna_end": null,
          "cdna_length": 4703,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000888489.1"
        },
        {
          "aa_ref": "QN",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 26,
          "exon_rank_end": null,
          "exon_count": 26,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "c.2611_2614delCAAA",
          "hgvs_p": "p.Gln871fs",
          "transcript": "ENST00000506290.1",
          "protein_id": "ENSP00000420905.1",
          "transcript_support_level": 2,
          "aa_start": 871,
          "aa_end": null,
          "aa_length": 881,
          "cds_start": 2611,
          "cds_end": null,
          "cds_length": 2646,
          "cdna_start": 2728,
          "cdna_end": null,
          "cdna_length": 3009,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000506290.1"
        },
        {
          "aa_ref": "QN",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 26,
          "exon_rank_end": null,
          "exon_count": 26,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "c.2608_2611delCAAA",
          "hgvs_p": "p.Gln870fs",
          "transcript": "ENST00000512763.5",
          "protein_id": "ENSP00000422008.1",
          "transcript_support_level": 2,
          "aa_start": 870,
          "aa_end": null,
          "aa_length": 880,
          "cds_start": 2608,
          "cds_end": null,
          "cds_length": 2643,
          "cdna_start": 2809,
          "cdna_end": null,
          "cdna_length": 3060,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000512763.5"
        },
        {
          "aa_ref": "QN",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 25,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "c.2578_2581delCAAA",
          "hgvs_p": "p.Gln860fs",
          "transcript": "NM_022650.3",
          "protein_id": "NP_072179.1",
          "transcript_support_level": null,
          "aa_start": 860,
          "aa_end": null,
          "aa_length": 870,
          "cds_start": 2578,
          "cds_end": null,
          "cds_length": 2613,
          "cdna_start": 2689,
          "cdna_end": null,
          "cdna_length": 3757,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_022650.3"
        },
        {
          "aa_ref": "QN",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RASA1",
          "gene_hgnc_id": 9871,
          "hgvs_c": "c.2548_2551delCAAA",
          "hgvs_p": "p.Gln850fs",
          "transcript": "ENST00000962098.1",
          "protein_id": "ENSP00000632157.1",
          "transcript_support_level": null,
          "aa_start": 850,
          "aa_end": null,
          "aa_length": 860,
          "cds_start": 2548,
          "cds_end": null,
          "cds_length": 2583,
          "cdna_start": 2730,
          "cdna_end": null,
          "cdna_length": 3796,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000962098.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCNH",
          "gene_hgnc_id": 1594,
          "hgvs_c": "c.*2012_*2015delGTTT",
          "hgvs_p": null,
          "transcript": "NM_001363539.2",
          "protein_id": "NP_001350468.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 325,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 978,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4378,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001363539.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCNH",
          "gene_hgnc_id": 1594,
          "hgvs_c": "c.*2098_*2101delGTTT",
          "hgvs_p": null,
          "transcript": "ENST00000888807.1",
          "protein_id": "ENSP00000558866.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4222,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000888807.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCNH",
          "gene_hgnc_id": 1594,
          "hgvs_c": "c.*2012_*2015delGTTT",
          "hgvs_p": null,
          "transcript": "NM_001364076.2",
          "protein_id": "NP_001351005.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 272,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 819,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 4621,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001364076.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": 8,
          "intron_rank_end": null,
          "gene_symbol": "CCNH",
          "gene_hgnc_id": 1594,
          "hgvs_c": "c.933+4196_933+4199delGTTT",
          "hgvs_p": null,
          "transcript": "NM_001364075.2",
          "protein_id": "NP_001351004.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 325,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 978,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2394,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001364075.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": 9,
          "intron_rank_end": null,
          "gene_symbol": "CCNH",
          "gene_hgnc_id": 1594,
          "hgvs_c": "c.*41+3557_*41+3560delGTTT",
          "hgvs_p": null,
          "transcript": "ENST00000888806.1",
          "protein_id": "ENSP00000558865.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1397,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000888806.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": 9,
          "intron_rank_end": null,
          "gene_symbol": "CCNH",
          "gene_hgnc_id": 1594,
          "hgvs_c": "c.*41+3557_*41+3560delGTTT",
          "hgvs_p": null,
          "transcript": "ENST00000962232.1",
          "protein_id": "ENSP00000632291.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1522,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000962232.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": 9,
          "intron_rank_end": null,
          "gene_symbol": "CCNH",
          "gene_hgnc_id": 1594,
          "hgvs_c": "c.*41+3557_*41+3560delGTTT",
          "hgvs_p": null,
          "transcript": "ENST00000962233.1",
          "protein_id": "ENSP00000632292.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2011,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000962233.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 8,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCNH",
          "gene_hgnc_id": 1594,
          "hgvs_c": "n.2962_2965delGTTT",
          "hgvs_p": null,
          "transcript": "NR_157071.2",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
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          "cdna_start": null,
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          "feature": "NR_157070.2"
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      ],
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      "gene_hgnc_id": 9871,
      "dbsnp": "rs1554051094",
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      "hom_count_reference_population": 0,
      "allele_count_reference_population": 0,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": null,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": null,
      "computational_prediction_selected": null,
      "computational_source_selected": null,
      "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": null,
      "bayesdelnoaf_prediction": null,
      "phylop100way_score": 8.681,
      "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": 5,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PVS1_Moderate,PM2,PP5",
      "acmg_by_gene": [
        {
          "score": 5,
          "benign_score": 0,
          "pathogenic_score": 5,
          "criteria": [
            "PVS1_Moderate",
            "PM2",
            "PP5"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_002890.3",
          "gene_symbol": "RASA1",
          "hgnc_id": 9871,
          "effects": [
            "frameshift_variant"
          ],
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          "hgvs_c": "c.3109_3112delCAAA",
          "hgvs_p": "p.Gln1037fs"
        },
        {
          "score": 3,
          "benign_score": 0,
          "pathogenic_score": 3,
          "criteria": [
            "PM2",
            "PP5"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_001363539.2",
          "gene_symbol": "CCNH",
          "hgnc_id": 1594,
          "effects": [
            "3_prime_UTR_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.*2012_*2015delGTTT",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "Capillary malformation-arteriovenous malformation 1,Capillary malformation-arteriovenous malformation syndrome",
      "clinvar_classification": "Conflicting classifications of pathogenicity",
      "clinvar_review_status": "criteria provided, conflicting classifications",
      "clinvar_submissions_summary": "LP:1 US:1",
      "phenotype_combined": "Capillary malformation-arteriovenous malformation syndrome|Capillary malformation-arteriovenous malformation 1",
      "pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
      "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.