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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: 15-83576652-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=15&pos=83576652&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "15",
"pos": 83576652,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_001324182.2",
"consequences": [
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.535C>T",
"hgvs_p": "p.Pro179Ser",
"transcript": "NM_003027.5",
"protein_id": "NP_003018.3",
"transcript_support_level": null,
"aa_start": 179,
"aa_end": null,
"aa_length": 347,
"cds_start": 535,
"cds_end": null,
"cds_length": 1044,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000427482.7",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_003027.5"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.535C>T",
"hgvs_p": "p.Pro179Ser",
"transcript": "ENST00000427482.7",
"protein_id": "ENSP00000391372.2",
"transcript_support_level": 1,
"aa_start": 179,
"aa_end": null,
"aa_length": 347,
"cds_start": 535,
"cds_end": null,
"cds_length": 1044,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_003027.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000427482.7"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "n.*330C>T",
"hgvs_p": null,
"transcript": "ENST00000563901.5",
"protein_id": "ENSP00000456249.1",
"transcript_support_level": 1,
"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": "ENST00000563901.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "n.*330C>T",
"hgvs_p": null,
"transcript": "ENST00000563901.5",
"protein_id": "ENSP00000456249.1",
"transcript_support_level": 1,
"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": "ENST00000563901.5"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.535C>T",
"hgvs_p": "p.Pro179Ser",
"transcript": "ENST00000903482.1",
"protein_id": "ENSP00000573541.1",
"transcript_support_level": null,
"aa_start": 179,
"aa_end": null,
"aa_length": 369,
"cds_start": 535,
"cds_end": null,
"cds_length": 1110,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000903482.1"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.535C>T",
"hgvs_p": "p.Pro179Ser",
"transcript": "NM_001324182.2",
"protein_id": "NP_001311111.1",
"transcript_support_level": null,
"aa_start": 179,
"aa_end": null,
"aa_length": 360,
"cds_start": 535,
"cds_end": null,
"cds_length": 1083,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001324182.2"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.559C>T",
"hgvs_p": "p.Pro187Ser",
"transcript": "NM_001301109.2",
"protein_id": "NP_001288038.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 355,
"cds_start": 559,
"cds_end": null,
"cds_length": 1068,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001301109.2"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.559C>T",
"hgvs_p": "p.Pro187Ser",
"transcript": "NM_001324183.2",
"protein_id": "NP_001311112.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 355,
"cds_start": 559,
"cds_end": null,
"cds_length": 1068,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001324183.2"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.559C>T",
"hgvs_p": "p.Pro187Ser",
"transcript": "ENST00000324537.5",
"protein_id": "ENSP00000320092.5",
"transcript_support_level": 2,
"aa_start": 187,
"aa_end": null,
"aa_length": 355,
"cds_start": 559,
"cds_end": null,
"cds_length": 1068,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000324537.5"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.466C>T",
"hgvs_p": "p.Pro156Ser",
"transcript": "ENST00000951042.1",
"protein_id": "ENSP00000621101.1",
"transcript_support_level": null,
"aa_start": 156,
"aa_end": null,
"aa_length": 324,
"cds_start": 466,
"cds_end": null,
"cds_length": 975,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000951042.1"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.430C>T",
"hgvs_p": "p.Pro144Ser",
"transcript": "NM_001324184.2",
"protein_id": "NP_001311113.1",
"transcript_support_level": null,
"aa_start": 144,
"aa_end": null,
"aa_length": 312,
"cds_start": 430,
"cds_end": null,
"cds_length": 939,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001324184.2"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.430C>T",
"hgvs_p": "p.Pro144Ser",
"transcript": "NM_001324186.2",
"protein_id": "NP_001311115.1",
"transcript_support_level": null,
"aa_start": 144,
"aa_end": null,
"aa_length": 312,
"cds_start": 430,
"cds_end": null,
"cds_length": 939,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001324186.2"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.328C>T",
"hgvs_p": "p.Pro110Ser",
"transcript": "NM_001301108.2",
"protein_id": "NP_001288037.1",
"transcript_support_level": null,
"aa_start": 110,
"aa_end": null,
"aa_length": 278,
"cds_start": 328,
"cds_end": null,
"cds_length": 837,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001301108.2"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.328C>T",
"hgvs_p": "p.Pro110Ser",
"transcript": "NM_001324185.2",
"protein_id": "NP_001311114.1",
"transcript_support_level": null,
"aa_start": 110,
"aa_end": null,
"aa_length": 278,
"cds_start": 328,
"cds_end": null,
"cds_length": 837,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001324185.2"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.328C>T",
"hgvs_p": "p.Pro110Ser",
"transcript": "NM_001324187.1",
"protein_id": "NP_001311116.1",
"transcript_support_level": null,
"aa_start": 110,
"aa_end": null,
"aa_length": 278,
"cds_start": 328,
"cds_end": null,
"cds_length": 837,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001324187.1"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.559C>T",
"hgvs_p": "p.Pro187Ser",
"transcript": "XM_011521889.2",
"protein_id": "XP_011520191.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 355,
"cds_start": 559,
"cds_end": null,
"cds_length": 1068,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011521889.2"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.328C>T",
"hgvs_p": "p.Pro110Ser",
"transcript": "XM_017022486.3",
"protein_id": "XP_016877975.1",
"transcript_support_level": null,
"aa_start": 110,
"aa_end": null,
"aa_length": 278,
"cds_start": 328,
"cds_end": null,
"cds_length": 837,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017022486.3"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.559C>T",
"hgvs_p": "p.Pro187Ser",
"transcript": "XM_047432940.1",
"protein_id": "XP_047288896.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 237,
"cds_start": 559,
"cds_end": null,
"cds_length": 714,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047432940.1"
},
{
"aa_ref": "P",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "c.559C>T",
"hgvs_p": "p.Pro187Ser",
"transcript": "XM_011521892.3",
"protein_id": "XP_011520194.1",
"transcript_support_level": null,
"aa_start": 187,
"aa_end": null,
"aa_length": 217,
"cds_start": 559,
"cds_end": null,
"cds_length": 654,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011521892.3"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "n.728C>T",
"hgvs_p": null,
"transcript": "NR_125370.2",
"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,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "NR_125370.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "n.872C>T",
"hgvs_p": null,
"transcript": "NR_136711.2",
"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,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "NR_136711.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SH3GL3",
"gene_hgnc_id": 10832,
"hgvs_c": "n.1059C>T",
"hgvs_p": null,
"transcript": "NR_136712.2",
"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,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "NR_136712.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
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{
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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": "SH3GL3",
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"biotype": "pseudogene",
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],
"gene_symbol": "SH3GL3",
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"dbsnp": "rs537658440",
"frequency_reference_population": 0.00003718942,
"hom_count_reference_population": 0,
"allele_count_reference_population": 60,
"gnomad_exomes_af": 0.0000342187,
"gnomad_genomes_af": 0.0000657151,
"gnomad_exomes_ac": 50,
"gnomad_genomes_ac": 10,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.14386066794395447,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.07000000029802322,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.133,
"revel_prediction": "Benign",
"alphamissense_score": 0.1043,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.31,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 4.423,
"phylop100way_prediction": "Uncertain_significance",
"spliceai_max_score": 0.07,
"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": -6,
"acmg_classification": "Likely_benign",
"acmg_criteria": "BP4_Moderate,BS2",
"acmg_by_gene": [
{
"score": -6,
"benign_score": 6,
"pathogenic_score": 0,
"criteria": [
"BP4_Moderate",
"BS2"
],
"verdict": "Likely_benign",
"transcript": "NM_001324182.2",
"gene_symbol": "SH3GL3",
"hgnc_id": 10832,
"effects": [
"missense_variant"
],
"inheritance_mode": "AD",
"hgvs_c": "c.535C>T",
"hgvs_p": "p.Pro179Ser"
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],
"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
}