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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: 1-228106828-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=228106828&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "1",
      "pos": 228106828,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_181462.3",
      "consequences": [
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.319G>A",
          "hgvs_p": "p.Glu107Lys",
          "transcript": "NM_181463.3",
          "protein_id": "NP_852128.1",
          "transcript_support_level": null,
          "aa_start": 107,
          "aa_end": null,
          "aa_length": 128,
          "cds_start": 319,
          "cds_end": null,
          "cds_length": 387,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000336520.8",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_181463.3"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.319G>A",
          "hgvs_p": "p.Glu107Lys",
          "transcript": "ENST00000336520.8",
          "protein_id": "ENSP00000337342.3",
          "transcript_support_level": 2,
          "aa_start": 107,
          "aa_end": null,
          "aa_length": 128,
          "cds_start": 319,
          "cds_end": null,
          "cds_length": 387,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_181463.3",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000336520.8"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000366738.5",
          "protein_id": "ENSP00000355699.1",
          "transcript_support_level": 1,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000366738.5"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.319G>A",
          "hgvs_p": "p.Glu107Lys",
          "transcript": "ENST00000366735.5",
          "protein_id": "ENSP00000355696.1",
          "transcript_support_level": 1,
          "aa_start": 107,
          "aa_end": null,
          "aa_length": 128,
          "cds_start": 319,
          "cds_end": null,
          "cds_length": 387,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000366735.5"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.319G>A",
          "hgvs_p": "p.Glu107Lys",
          "transcript": "ENST00000366746.7",
          "protein_id": "ENSP00000355707.3",
          "transcript_support_level": 1,
          "aa_start": 107,
          "aa_end": null,
          "aa_length": 128,
          "cds_start": 319,
          "cds_end": null,
          "cds_length": 387,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000366746.7"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.319G>A",
          "hgvs_p": "p.Glu107Lys",
          "transcript": "ENST00000366747.7",
          "protein_id": "ENSP00000355708.3",
          "transcript_support_level": 1,
          "aa_start": 107,
          "aa_end": null,
          "aa_length": 128,
          "cds_start": 319,
          "cds_end": null,
          "cds_length": 387,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000366747.7"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "NM_181462.3",
          "protein_id": "NP_852127.2",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_181462.3"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000430433.5",
          "protein_id": "ENSP00000403614.1",
          "transcript_support_level": 5,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000430433.5"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000877035.1",
          "protein_id": "ENSP00000547094.1",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000877035.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000877036.1",
          "protein_id": "ENSP00000547095.1",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000877036.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000877040.1",
          "protein_id": "ENSP00000547099.1",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000877040.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000877055.1",
          "protein_id": "ENSP00000547114.1",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000877055.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000927950.1",
          "protein_id": "ENSP00000598009.1",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000927950.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000927953.1",
          "protein_id": "ENSP00000598012.1",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000927953.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000927958.1",
          "protein_id": "ENSP00000598017.1",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000927958.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000927968.1",
          "protein_id": "ENSP00000598027.1",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000927968.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000927982.1",
          "protein_id": "ENSP00000598041.1",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000927982.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys",
          "transcript": "ENST00000957207.1",
          "protein_id": "ENSP00000627266.1",
          "transcript_support_level": null,
          "aa_start": 143,
          "aa_end": null,
          "aa_length": 164,
          "cds_start": 427,
          "cds_end": null,
          "cds_length": 495,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000957207.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.319G>A",
          "hgvs_p": "p.Glu107Lys",
          "transcript": "NM_001321284.2",
          "protein_id": "NP_001308213.1",
          "transcript_support_level": null,
          "aa_start": 107,
          "aa_end": null,
          "aa_length": 128,
          "cds_start": 319,
          "cds_end": null,
          "cds_length": 387,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001321284.2"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MRPL55",
          "gene_hgnc_id": 16686,
          "hgvs_c": "c.319G>A",
          "hgvs_p": "p.Glu107Lys",
          "transcript": "NM_181441.3",
          "protein_id": "NP_852106.1",
          "transcript_support_level": null,
          "aa_start": 107,
          "aa_end": null,
          "aa_length": 128,
          "cds_start": 319,
          "cds_end": null,
          "cds_length": 387,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_181441.3"
        },
        {
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        {
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          "biotype": "pseudogene",
          "feature": "ENST00000763761.1"
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      ],
      "gene_symbol": "MRPL55",
      "gene_hgnc_id": 16686,
      "dbsnp": "rs375373877",
      "frequency_reference_population": 0.00003098097,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 50,
      "gnomad_exomes_af": 0.0000301025,
      "gnomad_genomes_af": 0.0000394166,
      "gnomad_exomes_ac": 44,
      "gnomad_genomes_ac": 6,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.04527440667152405,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.019,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.0803,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.72,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": -0.05,
      "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": -2,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "PM2,BP4_Strong",
      "acmg_by_gene": [
        {
          "score": -2,
          "benign_score": 4,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Strong"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_181462.3",
          "gene_symbol": "MRPL55",
          "hgnc_id": 16686,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.427G>A",
          "hgvs_p": "p.Glu143Lys"
        },
        {
          "score": -2,
          "benign_score": 4,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Strong"
          ],
          "verdict": "Likely_benign",
          "transcript": "ENST00000763761.1",
          "gene_symbol": "ENSG00000299474",
          "hgnc_id": null,
          "effects": [
            "non_coding_transcript_exon_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.310C>T",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "not specified",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "not specified",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}