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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: 3-42519304-T-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=3&pos=42519304&ref=T&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "3",
"pos": 42519304,
"ref": "T",
"alt": "C",
"effect": "missense_variant",
"transcript": "NM_004624.4",
"consequences": [
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.266T>C",
"hgvs_p": "p.Ile89Thr",
"transcript": "NM_004624.4",
"protein_id": "NP_004615.2",
"transcript_support_level": null,
"aa_start": 89,
"aa_end": null,
"aa_length": 457,
"cds_start": 266,
"cds_end": null,
"cds_length": 1374,
"cdna_start": 359,
"cdna_end": null,
"cdna_length": 2754,
"mane_select": "ENST00000325123.5",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.266T>C",
"hgvs_p": "p.Ile89Thr",
"transcript": "ENST00000325123.5",
"protein_id": "ENSP00000327246.4",
"transcript_support_level": 1,
"aa_start": 89,
"aa_end": null,
"aa_length": 457,
"cds_start": 266,
"cds_end": null,
"cds_length": 1374,
"cdna_start": 359,
"cdna_end": null,
"cdna_length": 2754,
"mane_select": "NM_004624.4",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.185T>C",
"hgvs_p": "p.Ile62Thr",
"transcript": "NM_001251885.2",
"protein_id": "NP_001238814.1",
"transcript_support_level": null,
"aa_start": 62,
"aa_end": null,
"aa_length": 430,
"cds_start": 185,
"cds_end": null,
"cds_length": 1293,
"cdna_start": 313,
"cdna_end": null,
"cdna_length": 2708,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.143T>C",
"hgvs_p": "p.Ile48Thr",
"transcript": "NM_001251882.2",
"protein_id": "NP_001238811.1",
"transcript_support_level": null,
"aa_start": 48,
"aa_end": null,
"aa_length": 416,
"cds_start": 143,
"cds_end": null,
"cds_length": 1251,
"cdna_start": 767,
"cdna_end": null,
"cdna_length": 3162,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.143T>C",
"hgvs_p": "p.Ile48Thr",
"transcript": "ENST00000433647.5",
"protein_id": "ENSP00000394950.1",
"transcript_support_level": 2,
"aa_start": 48,
"aa_end": null,
"aa_length": 416,
"cds_start": 143,
"cds_end": null,
"cds_length": 1251,
"cdna_start": 767,
"cdna_end": null,
"cdna_length": 3161,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.125T>C",
"hgvs_p": "p.Ile42Thr",
"transcript": "NM_001251884.2",
"protein_id": "NP_001238813.1",
"transcript_support_level": null,
"aa_start": 42,
"aa_end": null,
"aa_length": 409,
"cds_start": 125,
"cds_end": null,
"cds_length": 1230,
"cdna_start": 253,
"cdna_end": null,
"cdna_length": 2645,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.125T>C",
"hgvs_p": "p.Ile42Thr",
"transcript": "ENST00000543411.5",
"protein_id": "ENSP00000445701.1",
"transcript_support_level": 2,
"aa_start": 42,
"aa_end": null,
"aa_length": 409,
"cds_start": 125,
"cds_end": null,
"cds_length": 1230,
"cdna_start": 284,
"cdna_end": null,
"cdna_length": 2681,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.266T>C",
"hgvs_p": "p.Ile89Thr",
"transcript": "ENST00000439731.5",
"protein_id": "ENSP00000403478.1",
"transcript_support_level": 3,
"aa_start": 89,
"aa_end": null,
"aa_length": 218,
"cds_start": 266,
"cds_end": null,
"cds_length": 657,
"cdna_start": 379,
"cdna_end": null,
"cdna_length": 770,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.143T>C",
"hgvs_p": "p.Ile48Thr",
"transcript": "ENST00000450274.5",
"protein_id": "ENSP00000415013.1",
"transcript_support_level": 3,
"aa_start": 48,
"aa_end": null,
"aa_length": 125,
"cds_start": 143,
"cds_end": null,
"cds_length": 380,
"cdna_start": 506,
"cdna_end": null,
"cdna_length": 743,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.266T>C",
"hgvs_p": "p.Ile89Thr",
"transcript": "XM_005265437.3",
"protein_id": "XP_005265494.1",
"transcript_support_level": null,
"aa_start": 89,
"aa_end": null,
"aa_length": 456,
"cds_start": 266,
"cds_end": null,
"cds_length": 1371,
"cdna_start": 359,
"cdna_end": null,
"cdna_length": 2751,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.125T>C",
"hgvs_p": "p.Ile42Thr",
"transcript": "XM_005265439.3",
"protein_id": "XP_005265496.1",
"transcript_support_level": null,
"aa_start": 42,
"aa_end": null,
"aa_length": 410,
"cds_start": 125,
"cds_end": null,
"cds_length": 1233,
"cdna_start": 253,
"cdna_end": null,
"cdna_length": 2648,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.266T>C",
"hgvs_p": "p.Ile89Thr",
"transcript": "XM_011534080.3",
"protein_id": "XP_011532382.1",
"transcript_support_level": null,
"aa_start": 89,
"aa_end": null,
"aa_length": 351,
"cds_start": 266,
"cds_end": null,
"cds_length": 1056,
"cdna_start": 359,
"cdna_end": null,
"cdna_length": 1266,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "I",
"aa_alt": "T",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "c.266T>C",
"hgvs_p": "p.Ile89Thr",
"transcript": "XM_047448850.1",
"protein_id": "XP_047304806.1",
"transcript_support_level": null,
"aa_start": 89,
"aa_end": null,
"aa_length": 350,
"cds_start": 266,
"cds_end": null,
"cds_length": 1053,
"cdna_start": 359,
"cdna_end": null,
"cdna_length": 1263,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "n.*22T>C",
"hgvs_p": null,
"transcript": "ENST00000436487.5",
"protein_id": "ENSP00000393215.1",
"transcript_support_level": 5,
"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": 1002,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "n.*22T>C",
"hgvs_p": null,
"transcript": "ENST00000439910.5",
"protein_id": "ENSP00000403680.1",
"transcript_support_level": 2,
"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": 1393,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "n.*22T>C",
"hgvs_p": null,
"transcript": "ENST00000443646.5",
"protein_id": "ENSP00000388479.1",
"transcript_support_level": 5,
"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": 1505,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "n.*22T>C",
"hgvs_p": null,
"transcript": "ENST00000446673.5",
"protein_id": "ENSP00000396204.1",
"transcript_support_level": 5,
"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": 822,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "n.138T>C",
"hgvs_p": null,
"transcript": "ENST00000473575.1",
"protein_id": null,
"transcript_support_level": 3,
"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": 778,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"hgvs_c": "n.373T>C",
"hgvs_p": null,
"transcript": "ENST00000487545.1",
"protein_id": null,
"transcript_support_level": 3,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": -4,
"cds_end": null,
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"cdna_start": null,
"cdna_end": null,
"cdna_length": 383,
"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": 6,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1-AS1",
"gene_hgnc_id": 40610,
"hgvs_c": "n.592A>G",
"hgvs_p": null,
"transcript": "ENST00000593611.3",
"protein_id": null,
"transcript_support_level": 5,
"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": 755,
"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": 5,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1-AS1",
"gene_hgnc_id": 40610,
"hgvs_c": "n.346A>G",
"hgvs_p": null,
"transcript": "ENST00000593621.5",
"protein_id": null,
"transcript_support_level": 5,
"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": 685,
"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": 4,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1-AS1",
"gene_hgnc_id": 40610,
"hgvs_c": "n.247A>G",
"hgvs_p": null,
"transcript": "ENST00000598837.5",
"protein_id": null,
"transcript_support_level": 5,
"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": 760,
"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": 5,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "VIPR1-AS1",
"gene_hgnc_id": 40610,
"hgvs_c": "n.346A>G",
"hgvs_p": null,
"transcript": "ENST00000601312.5",
"protein_id": null,
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
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},
{
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"protein_coding": false,
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},
{
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},
{
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],
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"exon_count": 4,
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"gene_symbol": "VIPR1-AS1",
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},
{
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"consequences": [
"intron_variant"
],
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"exon_count": 4,
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"gene_symbol": "VIPR1-AS1",
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{
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},
{
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],
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},
{
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],
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"gene_symbol": "VIPR1-AS1",
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}
],
"gene_symbol": "VIPR1",
"gene_hgnc_id": 12694,
"dbsnp": "rs201942399",
"frequency_reference_population": 0.00008820369,
"hom_count_reference_population": 0,
"allele_count_reference_population": 142,
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"gnomad_genomes_af": 0.0000854364,
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"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.05663219094276428,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.179,
"revel_prediction": "Benign",
"alphamissense_score": 0.6167,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.26,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 1.588,
"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": -4,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong,BP6_Moderate",
"acmg_by_gene": [
{
"score": -4,
"benign_score": 6,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong",
"BP6_Moderate"
],
"verdict": "Likely_benign",
"transcript": "NM_004624.4",
"gene_symbol": "VIPR1",
"hgnc_id": 12694,
"effects": [
"missense_variant"
],
"inheritance_mode": "",
"hgvs_c": "c.266T>C",
"hgvs_p": "p.Ile89Thr"
},
{
"score": -4,
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"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong",
"BP6_Moderate"
],
"verdict": "Likely_benign",
"transcript": "ENST00000593611.3",
"gene_symbol": "VIPR1-AS1",
"hgnc_id": 40610,
"effects": [
"non_coding_transcript_exon_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.592A>G",
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}
],
"clinvar_disease": "not provided",
"clinvar_classification": "Likely benign",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "LB:1",
"phenotype_combined": "not provided",
"pathogenicity_classification_combined": "Likely benign",
"custom_annotations": null
}
],
"message": null
}