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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: 20-42084781-G-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=20&pos=42084781&ref=G&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "20",
      "pos": 42084781,
      "ref": "G",
      "alt": "C",
      "effect": "missense_variant",
      "transcript": "NM_133170.4",
      "consequences": [
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4037C>G",
          "hgvs_p": "p.Thr1346Arg",
          "transcript": "NM_007050.6",
          "protein_id": "NP_008981.4",
          "transcript_support_level": null,
          "aa_start": 1346,
          "aa_end": null,
          "aa_length": 1441,
          "cds_start": 4037,
          "cds_end": null,
          "cds_length": 4326,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000373187.6",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_007050.6"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4037C>G",
          "hgvs_p": "p.Thr1346Arg",
          "transcript": "ENST00000373187.6",
          "protein_id": "ENSP00000362283.1",
          "transcript_support_level": 1,
          "aa_start": 1346,
          "aa_end": null,
          "aa_length": 1441,
          "cds_start": 4037,
          "cds_end": null,
          "cds_length": 4326,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_007050.6",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000373187.6"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4103C>G",
          "hgvs_p": "p.Thr1368Arg",
          "transcript": "ENST00000373193.7",
          "protein_id": "ENSP00000362289.4",
          "transcript_support_level": 1,
          "aa_start": 1368,
          "aa_end": null,
          "aa_length": 1463,
          "cds_start": 4103,
          "cds_end": null,
          "cds_length": 4392,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000373193.7"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4094C>G",
          "hgvs_p": "p.Thr1365Arg",
          "transcript": "ENST00000373198.8",
          "protein_id": "ENSP00000362294.4",
          "transcript_support_level": 1,
          "aa_start": 1365,
          "aa_end": null,
          "aa_length": 1460,
          "cds_start": 4094,
          "cds_end": null,
          "cds_length": 4383,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000373198.8"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": true,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "n.*3904C>G",
          "hgvs_p": null,
          "transcript": "ENST00000617474.1",
          "protein_id": "ENSP00000484248.1",
          "transcript_support_level": 5,
          "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": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000617474.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": true,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "n.*3904C>G",
          "hgvs_p": null,
          "transcript": "ENST00000617474.1",
          "protein_id": "ENSP00000484248.1",
          "transcript_support_level": 5,
          "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": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000617474.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4094C>G",
          "hgvs_p": "p.Thr1365Arg",
          "transcript": "NM_001394024.1",
          "protein_id": "NP_001380953.1",
          "transcript_support_level": null,
          "aa_start": 1365,
          "aa_end": null,
          "aa_length": 1460,
          "cds_start": 4094,
          "cds_end": null,
          "cds_length": 4383,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001394024.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4094C>G",
          "hgvs_p": "p.Thr1365Arg",
          "transcript": "NM_133170.4",
          "protein_id": "NP_573400.3",
          "transcript_support_level": null,
          "aa_start": 1365,
          "aa_end": null,
          "aa_length": 1460,
          "cds_start": 4094,
          "cds_end": null,
          "cds_length": 4383,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_133170.4"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4067C>G",
          "hgvs_p": "p.Thr1356Arg",
          "transcript": "ENST00000373184.5",
          "protein_id": "ENSP00000362280.1",
          "transcript_support_level": 5,
          "aa_start": 1356,
          "aa_end": null,
          "aa_length": 1451,
          "cds_start": 4067,
          "cds_end": null,
          "cds_length": 4356,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000373184.5"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4064C>G",
          "hgvs_p": "p.Thr1355Arg",
          "transcript": "ENST00000356100.6",
          "protein_id": "ENSP00000348408.2",
          "transcript_support_level": 5,
          "aa_start": 1355,
          "aa_end": null,
          "aa_length": 1450,
          "cds_start": 4064,
          "cds_end": null,
          "cds_length": 4353,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000356100.6"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4061C>G",
          "hgvs_p": "p.Thr1354Arg",
          "transcript": "NM_001394025.1",
          "protein_id": "NP_001380954.1",
          "transcript_support_level": null,
          "aa_start": 1354,
          "aa_end": null,
          "aa_length": 1449,
          "cds_start": 4061,
          "cds_end": null,
          "cds_length": 4350,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001394025.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4034C>G",
          "hgvs_p": "p.Thr1345Arg",
          "transcript": "ENST00000373190.5",
          "protein_id": "ENSP00000362286.1",
          "transcript_support_level": 5,
          "aa_start": 1345,
          "aa_end": null,
          "aa_length": 1440,
          "cds_start": 4034,
          "cds_end": null,
          "cds_length": 4323,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000373190.5"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 28,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4007C>G",
          "hgvs_p": "p.Thr1336Arg",
          "transcript": "ENST00000373201.5",
          "protein_id": "ENSP00000362297.1",
          "transcript_support_level": 5,
          "aa_start": 1336,
          "aa_end": null,
          "aa_length": 1431,
          "cds_start": 4007,
          "cds_end": null,
          "cds_length": 4296,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000373201.5"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4082C>G",
          "hgvs_p": "p.Thr1361Arg",
          "transcript": "XM_017027611.2",
          "protein_id": "XP_016883100.1",
          "transcript_support_level": null,
          "aa_start": 1361,
          "aa_end": null,
          "aa_length": 1456,
          "cds_start": 4082,
          "cds_end": null,
          "cds_length": 4371,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_017027611.2"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4079C>G",
          "hgvs_p": "p.Thr1360Arg",
          "transcript": "XM_017027612.2",
          "protein_id": "XP_016883101.1",
          "transcript_support_level": null,
          "aa_start": 1360,
          "aa_end": null,
          "aa_length": 1455,
          "cds_start": 4079,
          "cds_end": null,
          "cds_length": 4368,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_017027612.2"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4079C>G",
          "hgvs_p": "p.Thr1360Arg",
          "transcript": "XM_047439846.1",
          "protein_id": "XP_047295802.1",
          "transcript_support_level": null,
          "aa_start": 1360,
          "aa_end": null,
          "aa_length": 1455,
          "cds_start": 4079,
          "cds_end": null,
          "cds_length": 4368,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047439846.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4076C>G",
          "hgvs_p": "p.Thr1359Arg",
          "transcript": "XM_047439847.1",
          "protein_id": "XP_047295803.1",
          "transcript_support_level": null,
          "aa_start": 1359,
          "aa_end": null,
          "aa_length": 1454,
          "cds_start": 4076,
          "cds_end": null,
          "cds_length": 4365,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047439847.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4034C>G",
          "hgvs_p": "p.Thr1345Arg",
          "transcript": "XM_047439848.1",
          "protein_id": "XP_047295804.1",
          "transcript_support_level": null,
          "aa_start": 1345,
          "aa_end": null,
          "aa_length": 1454,
          "cds_start": 4034,
          "cds_end": null,
          "cds_length": 4365,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047439848.1"
        },
        {
          "aa_ref": "T",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 28,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PTPRT",
          "gene_hgnc_id": 9682,
          "hgvs_c": "c.4022C>G",
          "hgvs_p": "p.Thr1341Arg",
          "transcript": "XM_017027613.2",
          "protein_id": "XP_016883102.1",
          "transcript_support_level": null,
          "aa_start": 1341,
          "aa_end": null,
          "aa_length": 1436,
          "cds_start": 4022,
          "cds_end": null,
          "cds_length": 4311,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_017027613.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "LOC101927182",
          "gene_hgnc_id": null,
          "hgvs_c": "n.280+2745G>C",
          "hgvs_p": null,
          "transcript": "XR_001754608.2",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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      "computational_score_selected": 0.5397630929946899,
      "computational_prediction_selected": "Uncertain_significance",
      "computational_source_selected": "MetaRNN",
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      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
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      "revel_prediction": "Benign",
      "alphamissense_score": 0.6376,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.01,
      "bayesdelnoaf_prediction": "Uncertain_significance",
      "phylop100way_score": 4.98,
      "phylop100way_prediction": "Uncertain_significance",
      "spliceai_max_score": 0,
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      "acmg_score": 2,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM2",
      "acmg_by_gene": [
        {
          "score": 2,
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          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_133170.4",
          "gene_symbol": "PTPRT",
          "hgnc_id": 9682,
          "effects": [
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        },
        {
          "score": 2,
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          "criteria": [
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          ],
          "verdict": "Uncertain_significance",
          "transcript": "XR_244179.4",
          "gene_symbol": "LOC101927182",
          "hgnc_id": null,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.280+2745G>C",
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        }
      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "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.