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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: 2-55636311-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=55636311&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 55636311,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_033109.5",
"consequences": [
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 28,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2278G>A",
"hgvs_p": "p.Val760Ile",
"transcript": "NM_033109.5",
"protein_id": "NP_149100.2",
"transcript_support_level": null,
"aa_start": 760,
"aa_end": null,
"aa_length": 783,
"cds_start": 2278,
"cds_end": null,
"cds_length": 2352,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000447944.7",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_033109.5"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 28,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2278G>A",
"hgvs_p": "p.Val760Ile",
"transcript": "ENST00000447944.7",
"protein_id": "ENSP00000400646.2",
"transcript_support_level": 1,
"aa_start": 760,
"aa_end": null,
"aa_length": 783,
"cds_start": 2278,
"cds_end": null,
"cds_length": 2352,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_033109.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000447944.7"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 28,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2296G>A",
"hgvs_p": "p.Val766Ile",
"transcript": "ENST00000917025.1",
"protein_id": "ENSP00000587084.1",
"transcript_support_level": null,
"aa_start": 766,
"aa_end": null,
"aa_length": 789,
"cds_start": 2296,
"cds_end": null,
"cds_length": 2370,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000917025.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 28,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2275G>A",
"hgvs_p": "p.Val759Ile",
"transcript": "ENST00000867135.1",
"protein_id": "ENSP00000537194.1",
"transcript_support_level": null,
"aa_start": 759,
"aa_end": null,
"aa_length": 782,
"cds_start": 2275,
"cds_end": null,
"cds_length": 2349,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000867135.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 28,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2275G>A",
"hgvs_p": "p.Val759Ile",
"transcript": "ENST00000917023.1",
"protein_id": "ENSP00000587082.1",
"transcript_support_level": null,
"aa_start": 759,
"aa_end": null,
"aa_length": 782,
"cds_start": 2275,
"cds_end": null,
"cds_length": 2349,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000917023.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 28,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2272G>A",
"hgvs_p": "p.Val758Ile",
"transcript": "ENST00000949803.1",
"protein_id": "ENSP00000619862.1",
"transcript_support_level": null,
"aa_start": 758,
"aa_end": null,
"aa_length": 781,
"cds_start": 2272,
"cds_end": null,
"cds_length": 2346,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000949803.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 28,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2269G>A",
"hgvs_p": "p.Val757Ile",
"transcript": "ENST00000949801.1",
"protein_id": "ENSP00000619860.1",
"transcript_support_level": null,
"aa_start": 757,
"aa_end": null,
"aa_length": 780,
"cds_start": 2269,
"cds_end": null,
"cds_length": 2343,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000949801.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 27,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2230G>A",
"hgvs_p": "p.Val744Ile",
"transcript": "ENST00000867137.1",
"protein_id": "ENSP00000537196.1",
"transcript_support_level": null,
"aa_start": 744,
"aa_end": null,
"aa_length": 767,
"cds_start": 2230,
"cds_end": null,
"cds_length": 2304,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000867137.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 27,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2230G>A",
"hgvs_p": "p.Val744Ile",
"transcript": "ENST00000917022.1",
"protein_id": "ENSP00000587081.1",
"transcript_support_level": null,
"aa_start": 744,
"aa_end": null,
"aa_length": 767,
"cds_start": 2230,
"cds_end": null,
"cds_length": 2304,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000917022.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 27,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2224G>A",
"hgvs_p": "p.Val742Ile",
"transcript": "ENST00000867134.1",
"protein_id": "ENSP00000537193.1",
"transcript_support_level": null,
"aa_start": 742,
"aa_end": null,
"aa_length": 765,
"cds_start": 2224,
"cds_end": null,
"cds_length": 2298,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000867134.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 28,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2209G>A",
"hgvs_p": "p.Val737Ile",
"transcript": "ENST00000949804.1",
"protein_id": "ENSP00000619863.1",
"transcript_support_level": null,
"aa_start": 737,
"aa_end": null,
"aa_length": 760,
"cds_start": 2209,
"cds_end": null,
"cds_length": 2283,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000949804.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 27,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2206G>A",
"hgvs_p": "p.Val736Ile",
"transcript": "ENST00000917024.1",
"protein_id": "ENSP00000587083.1",
"transcript_support_level": null,
"aa_start": 736,
"aa_end": null,
"aa_length": 759,
"cds_start": 2206,
"cds_end": null,
"cds_length": 2280,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000917024.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 27,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2203G>A",
"hgvs_p": "p.Val735Ile",
"transcript": "ENST00000867136.1",
"protein_id": "ENSP00000537195.1",
"transcript_support_level": null,
"aa_start": 735,
"aa_end": null,
"aa_length": 758,
"cds_start": 2203,
"cds_end": null,
"cds_length": 2277,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000867136.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 27,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2194G>A",
"hgvs_p": "p.Val732Ile",
"transcript": "ENST00000867132.1",
"protein_id": "ENSP00000537192.1",
"transcript_support_level": null,
"aa_start": 732,
"aa_end": null,
"aa_length": 755,
"cds_start": 2194,
"cds_end": null,
"cds_length": 2268,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000867132.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 26,
"exon_rank_end": null,
"exon_count": 26,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2170G>A",
"hgvs_p": "p.Val724Ile",
"transcript": "ENST00000949802.1",
"protein_id": "ENSP00000619861.1",
"transcript_support_level": null,
"aa_start": 724,
"aa_end": null,
"aa_length": 747,
"cds_start": 2170,
"cds_end": null,
"cds_length": 2244,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000949802.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 27,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2164G>A",
"hgvs_p": "p.Val722Ile",
"transcript": "ENST00000949800.1",
"protein_id": "ENSP00000619859.1",
"transcript_support_level": null,
"aa_start": 722,
"aa_end": null,
"aa_length": 745,
"cds_start": 2164,
"cds_end": null,
"cds_length": 2238,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000949800.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 26,
"exon_rank_end": null,
"exon_count": 26,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2104G>A",
"hgvs_p": "p.Val702Ile",
"transcript": "ENST00000917027.1",
"protein_id": "ENSP00000587086.1",
"transcript_support_level": null,
"aa_start": 702,
"aa_end": null,
"aa_length": 725,
"cds_start": 2104,
"cds_end": null,
"cds_length": 2178,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000917027.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.1960G>A",
"hgvs_p": "p.Val654Ile",
"transcript": "ENST00000917026.1",
"protein_id": "ENSP00000587085.1",
"transcript_support_level": null,
"aa_start": 654,
"aa_end": null,
"aa_length": 677,
"cds_start": 1960,
"cds_end": null,
"cds_length": 2034,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000917026.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"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": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.352G>A",
"hgvs_p": "p.Val118Ile",
"transcript": "ENST00000867138.1",
"protein_id": "ENSP00000537197.1",
"transcript_support_level": null,
"aa_start": 118,
"aa_end": null,
"aa_length": 141,
"cds_start": 352,
"cds_end": null,
"cds_length": 426,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000867138.1"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 28,
"exon_rank_end": null,
"exon_count": 28,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2038G>A",
"hgvs_p": "p.Val680Ile",
"transcript": "XM_005264629.3",
"protein_id": "XP_005264686.1",
"transcript_support_level": null,
"aa_start": 680,
"aa_end": null,
"aa_length": 703,
"cds_start": 2038,
"cds_end": null,
"cds_length": 2112,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_005264629.3"
},
{
"aa_ref": "V",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 27,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "c.2038G>A",
"hgvs_p": "p.Val680Ile",
"transcript": "XM_017005172.2",
"protein_id": "XP_016860661.1",
"transcript_support_level": null,
"aa_start": 680,
"aa_end": null,
"aa_length": 703,
"cds_start": 2038,
"cds_end": null,
"cds_length": 2112,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017005172.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 27,
"exon_rank_end": null,
"exon_count": 27,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "PNPT1",
"gene_hgnc_id": 23166,
"hgvs_c": "n.*1820G>A",
"hgvs_p": null,
"transcript": "ENST00000260604.8",
"protein_id": "ENSP00000260604.4",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": null,
"cds_start": null,
"cds_end": null,
"cds_length": null,
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{
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],
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{
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"3_prime_UTR_variant"
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{
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"protein_coding": false,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
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"gene_symbol": "PNPT1",
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"transcript": "ENST00000481066.1",
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"biotype": "retained_intron",
"feature": "ENST00000481066.1"
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],
"gene_symbol": "PNPT1",
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"dbsnp": "rs1340851603",
"frequency_reference_population": 6.841134e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 6.84113e-7,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 1,
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"gnomad_exomes_homalt": 0,
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"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.04116734862327576,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.03,
"revel_prediction": "Benign",
"alphamissense_score": 0.082,
"alphamissense_prediction": "Benign",
"bayesdelnoaf_score": -0.54,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 1.561,
"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_033109.5",
"gene_symbol": "PNPT1",
"hgnc_id": 23166,
"effects": [
"missense_variant"
],
"inheritance_mode": "Unknown,AR,AD",
"hgvs_c": "c.2278G>A",
"hgvs_p": "p.Val760Ile"
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}