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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: 2-74363398-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=74363398&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "2",
      "pos": 74363398,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "ENST00000628224.3",
      "consequences": [
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 28,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.3241G>A",
          "hgvs_p": "p.Val1081Met",
          "transcript": "NM_004082.5",
          "protein_id": "NP_004073.2",
          "transcript_support_level": null,
          "aa_start": 1081,
          "aa_end": null,
          "aa_length": 1278,
          "cds_start": 3241,
          "cds_end": null,
          "cds_length": 3837,
          "cdna_start": 3515,
          "cdna_end": null,
          "cdna_length": 4455,
          "mane_select": "ENST00000628224.3",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 28,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.3241G>A",
          "hgvs_p": "p.Val1081Met",
          "transcript": "ENST00000628224.3",
          "protein_id": "ENSP00000487279.2",
          "transcript_support_level": 5,
          "aa_start": 1081,
          "aa_end": null,
          "aa_length": 1278,
          "cds_start": 3241,
          "cds_end": null,
          "cds_length": 3837,
          "cdna_start": 3515,
          "cdna_end": null,
          "cdna_length": 4455,
          "mane_select": "NM_004082.5",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 27,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.3226G>A",
          "hgvs_p": "p.Val1076Met",
          "transcript": "ENST00000361874.8",
          "protein_id": "ENSP00000354791.4",
          "transcript_support_level": 1,
          "aa_start": 1076,
          "aa_end": null,
          "aa_length": 1273,
          "cds_start": 3226,
          "cds_end": null,
          "cds_length": 3822,
          "cdna_start": 3544,
          "cdna_end": null,
          "cdna_length": 4485,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.3166G>A",
          "hgvs_p": "p.Val1056Met",
          "transcript": "ENST00000409567.7",
          "protein_id": "ENSP00000386843.3",
          "transcript_support_level": 1,
          "aa_start": 1056,
          "aa_end": null,
          "aa_length": 1253,
          "cds_start": 3166,
          "cds_end": null,
          "cds_length": 3762,
          "cdna_start": 3428,
          "cdna_end": null,
          "cdna_length": 4024,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 24,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.3115G>A",
          "hgvs_p": "p.Val1039Met",
          "transcript": "ENST00000409240.5",
          "protein_id": "ENSP00000386406.1",
          "transcript_support_level": 1,
          "aa_start": 1039,
          "aa_end": null,
          "aa_length": 1236,
          "cds_start": 3115,
          "cds_end": null,
          "cds_length": 3711,
          "cdna_start": 3427,
          "cdna_end": null,
          "cdna_length": 4365,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 22,
          "exon_rank_end": null,
          "exon_count": 26,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.2824G>A",
          "hgvs_p": "p.Val942Met",
          "transcript": "ENST00000409438.5",
          "protein_id": "ENSP00000387270.1",
          "transcript_support_level": 1,
          "aa_start": 942,
          "aa_end": null,
          "aa_length": 1139,
          "cds_start": 2824,
          "cds_end": null,
          "cds_length": 3420,
          "cdna_start": 3207,
          "cdna_end": null,
          "cdna_length": 4145,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "n.1504G>A",
          "hgvs_p": null,
          "transcript": "ENST00000491465.5",
          "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": 2444,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 27,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.3220G>A",
          "hgvs_p": "p.Val1074Met",
          "transcript": "NM_001190837.2",
          "protein_id": "NP_001177766.1",
          "transcript_support_level": null,
          "aa_start": 1074,
          "aa_end": null,
          "aa_length": 1271,
          "cds_start": 3220,
          "cds_end": null,
          "cds_length": 3816,
          "cdna_start": 3494,
          "cdna_end": null,
          "cdna_length": 4434,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 27,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.3220G>A",
          "hgvs_p": "p.Val1074Met",
          "transcript": "ENST00000394003.7",
          "protein_id": "ENSP00000377571.3",
          "transcript_support_level": 5,
          "aa_start": 1074,
          "aa_end": null,
          "aa_length": 1271,
          "cds_start": 3220,
          "cds_end": null,
          "cds_length": 3816,
          "cdna_start": 3538,
          "cdna_end": null,
          "cdna_length": 4479,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 28,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.3190G>A",
          "hgvs_p": "p.Val1064Met",
          "transcript": "NM_001378991.1",
          "protein_id": "NP_001365920.1",
          "transcript_support_level": null,
          "aa_start": 1064,
          "aa_end": null,
          "aa_length": 1261,
          "cds_start": 3190,
          "cds_end": null,
          "cds_length": 3786,
          "cdna_start": 3281,
          "cdna_end": null,
          "cdna_length": 4221,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 28,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
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          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.3190G>A",
          "hgvs_p": "p.Val1064Met",
          "transcript": "ENST00000680606.1",
          "protein_id": "ENSP00000505612.1",
          "transcript_support_level": null,
          "aa_start": 1064,
          "aa_end": null,
          "aa_length": 1261,
          "cds_start": 3190,
          "cds_end": null,
          "cds_length": 3786,
          "cdna_start": 3281,
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          "cdna_length": 4221,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
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          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
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          "hgvs_c": "c.3175G>A",
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          "transcript": "ENST00000409868.5",
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          "cds_start": 3175,
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          "cdna_start": 3265,
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        {
          "aa_ref": "V",
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          "strand": false,
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          ],
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          "intron_rank": null,
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          "gene_symbol": "DCTN1",
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          "hgvs_c": "c.3172G>A",
          "hgvs_p": "p.Val1058Met",
          "transcript": "NM_001378992.1",
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        {
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          "protein_coding": true,
          "strand": false,
          "consequences": [
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          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": null,
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          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.3166G>A",
          "hgvs_p": "p.Val1056Met",
          "transcript": "NM_001135040.3",
          "protein_id": "NP_001128512.1",
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          "mane_select": null,
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        },
        {
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          "gene_symbol": "DCTN1",
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 23,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.2839G>A",
          "hgvs_p": "p.Val947Met",
          "transcript": "NM_023019.4",
          "protein_id": "NP_075408.1",
          "transcript_support_level": null,
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          "aa_length": 1144,
          "cds_start": 2839,
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          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 23,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.2839G>A",
          "hgvs_p": "p.Val947Met",
          "transcript": "ENST00000633691.1",
          "protein_id": "ENSP00000487724.1",
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          "aa_start": 947,
          "aa_end": null,
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          "cds_start": 2839,
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          "cdna_start": 3222,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "V",
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          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
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          "exon_rank_end": null,
          "exon_count": 26,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "c.2824G>A",
          "hgvs_p": "p.Val942Met",
          "transcript": "NM_001135041.3",
          "protein_id": "NP_001128513.1",
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 23,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "n.*525G>A",
          "hgvs_p": null,
          "transcript": "ENST00000434055.5",
          "protein_id": "ENSP00000416711.1",
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          "aa_length": null,
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          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "n.4478G>A",
          "hgvs_p": null,
          "transcript": "ENST00000466110.5",
          "protein_id": null,
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
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          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 5414,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 23,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
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          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "n.3289G>A",
          "hgvs_p": null,
          "transcript": "NR_033935.2",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 4229,
          "mane_select": null,
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          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 23,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
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          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "n.*525G>A",
          "hgvs_p": null,
          "transcript": "ENST00000434055.5",
          "protein_id": "ENSP00000416711.1",
          "transcript_support_level": 2,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 4229,
          "mane_select": null,
          "mane_plus": null,
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          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 2,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "DCTN1",
          "gene_hgnc_id": 2711,
          "hgvs_c": "n.97-1861G>A",
          "hgvs_p": null,
          "transcript": "ENST00000497666.1",
          "protein_id": null,
          "transcript_support_level": 3,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 479,
          "mane_select": null,
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        },
        {
          "aa_ref": null,
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          "canonical": true,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "upstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 39,
          "intron_rank": null,
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          "gene_symbol": "ENSG00000264324",
          "gene_hgnc_id": null,
          "hgvs_c": "n.-21G>A",
          "hgvs_p": null,
          "transcript": "ENST00000451608.2",
          "protein_id": "ENSP00000416453.2",
          "transcript_support_level": 5,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 5059,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        }
      ],
      "gene_symbol": "DCTN1",
      "gene_hgnc_id": 2711,
      "dbsnp": "rs764028925",
      "frequency_reference_population": 0.00003472868,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 56,
      "gnomad_exomes_af": 0.0000376634,
      "gnomad_genomes_af": 0.00000657047,
      "gnomad_exomes_ac": 55,
      "gnomad_genomes_ac": 1,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.057648152112960815,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.117,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.0874,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.49,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.635,
      "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": -9,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BS1_Supporting,BS2",
      "acmg_by_gene": [
        {
          "score": -9,
          "benign_score": 9,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BS1_Supporting",
            "BS2"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000628224.3",
          "gene_symbol": "DCTN1",
          "hgnc_id": 2711,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.3241G>A",
          "hgvs_p": "p.Val1081Met"
        },
        {
          "score": -2,
          "benign_score": 4,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Strong"
          ],
          "verdict": "Likely_benign",
          "transcript": "ENST00000451608.2",
          "gene_symbol": "ENSG00000264324",
          "hgnc_id": null,
          "effects": [
            "upstream_gene_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.-21G>A",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": " distal hereditary motor, type 7B,Amyotrophic lateral sclerosis type 1,DCTN1-related disorder,Neuronopathy,Perry syndrome,not provided",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "US:3",
      "phenotype_combined": "Neuronopathy, distal hereditary motor, type 7B;Amyotrophic lateral sclerosis type 1;Perry syndrome|not provided|DCTN1-related disorder",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}