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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: 19-38879289-G-A (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=19&pos=38879289&ref=G&alt=A&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "19",
"pos": 38879289,
"ref": "G",
"alt": "A",
"effect": "missense_variant",
"transcript": "NM_012237.4",
"consequences": [
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 16,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.1036C>T",
"hgvs_p": "p.Arg346Trp",
"transcript": "NM_012237.4",
"protein_id": "NP_036369.2",
"transcript_support_level": null,
"aa_start": 346,
"aa_end": null,
"aa_length": 389,
"cds_start": 1036,
"cds_end": null,
"cds_length": 1170,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000249396.12",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_012237.4"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 16,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.1036C>T",
"hgvs_p": "p.Arg346Trp",
"transcript": "ENST00000249396.12",
"protein_id": "ENSP00000249396.7",
"transcript_support_level": 1,
"aa_start": 346,
"aa_end": null,
"aa_length": 389,
"cds_start": 1036,
"cds_end": null,
"cds_length": 1170,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_012237.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000249396.12"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.925C>T",
"hgvs_p": "p.Arg309Trp",
"transcript": "ENST00000392081.6",
"protein_id": "ENSP00000375931.2",
"transcript_support_level": 1,
"aa_start": 309,
"aa_end": null,
"aa_length": 352,
"cds_start": 925,
"cds_end": null,
"cds_length": 1059,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000392081.6"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "n.1807C>T",
"hgvs_p": null,
"transcript": "ENST00000462654.5",
"protein_id": null,
"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": "retained_intron",
"feature": "ENST00000462654.5"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 16,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.1033C>T",
"hgvs_p": "p.Arg345Trp",
"transcript": "ENST00000872149.1",
"protein_id": "ENSP00000542208.1",
"transcript_support_level": null,
"aa_start": 345,
"aa_end": null,
"aa_length": 388,
"cds_start": 1033,
"cds_end": null,
"cds_length": 1167,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000872149.1"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 16,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.1030C>T",
"hgvs_p": "p.Arg344Trp",
"transcript": "ENST00000872147.1",
"protein_id": "ENSP00000542206.1",
"transcript_support_level": null,
"aa_start": 344,
"aa_end": null,
"aa_length": 387,
"cds_start": 1030,
"cds_end": null,
"cds_length": 1164,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000872147.1"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 16,
"exon_rank_end": null,
"exon_count": 16,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.988C>T",
"hgvs_p": "p.Arg330Trp",
"transcript": "ENST00000872146.1",
"protein_id": "ENSP00000542205.1",
"transcript_support_level": null,
"aa_start": 330,
"aa_end": null,
"aa_length": 373,
"cds_start": 988,
"cds_end": null,
"cds_length": 1122,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000872146.1"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.958C>T",
"hgvs_p": "p.Arg320Trp",
"transcript": "ENST00000872151.1",
"protein_id": "ENSP00000542210.1",
"transcript_support_level": null,
"aa_start": 320,
"aa_end": null,
"aa_length": 363,
"cds_start": 958,
"cds_end": null,
"cds_length": 1092,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000872151.1"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.940C>T",
"hgvs_p": "p.Arg314Trp",
"transcript": "ENST00000872150.1",
"protein_id": "ENSP00000542209.1",
"transcript_support_level": null,
"aa_start": 314,
"aa_end": null,
"aa_length": 357,
"cds_start": 940,
"cds_end": null,
"cds_length": 1074,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000872150.1"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.925C>T",
"hgvs_p": "p.Arg309Trp",
"transcript": "NM_030593.3",
"protein_id": "NP_085096.1",
"transcript_support_level": null,
"aa_start": 309,
"aa_end": null,
"aa_length": 352,
"cds_start": 925,
"cds_end": null,
"cds_length": 1059,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_030593.3"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.922C>T",
"hgvs_p": "p.Arg308Trp",
"transcript": "ENST00000941837.1",
"protein_id": "ENSP00000611896.1",
"transcript_support_level": null,
"aa_start": 308,
"aa_end": null,
"aa_length": 351,
"cds_start": 922,
"cds_end": null,
"cds_length": 1056,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000941837.1"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.826C>T",
"hgvs_p": "p.Arg276Trp",
"transcript": "ENST00000872145.1",
"protein_id": "ENSP00000542204.1",
"transcript_support_level": null,
"aa_start": 276,
"aa_end": null,
"aa_length": 319,
"cds_start": 826,
"cds_end": null,
"cds_length": 960,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000872145.1"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.823C>T",
"hgvs_p": "p.Arg275Trp",
"transcript": "ENST00000941836.1",
"protein_id": "ENSP00000611895.1",
"transcript_support_level": null,
"aa_start": 275,
"aa_end": null,
"aa_length": 318,
"cds_start": 823,
"cds_end": null,
"cds_length": 957,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000941836.1"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.820C>T",
"hgvs_p": "p.Arg274Trp",
"transcript": "ENST00000872148.1",
"protein_id": "ENSP00000542207.1",
"transcript_support_level": null,
"aa_start": 274,
"aa_end": null,
"aa_length": 317,
"cds_start": 820,
"cds_end": null,
"cds_length": 954,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000872148.1"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 15,
"exon_rank_end": null,
"exon_count": 15,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.925C>T",
"hgvs_p": "p.Arg309Trp",
"transcript": "XM_047438468.1",
"protein_id": "XP_047294424.1",
"transcript_support_level": null,
"aa_start": 309,
"aa_end": null,
"aa_length": 352,
"cds_start": 925,
"cds_end": null,
"cds_length": 1059,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047438468.1"
},
{
"aa_ref": "R",
"aa_alt": "W",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.826C>T",
"hgvs_p": "p.Arg276Trp",
"transcript": "XM_011526655.2",
"protein_id": "XP_011524957.1",
"transcript_support_level": null,
"aa_start": 276,
"aa_end": null,
"aa_length": 319,
"cds_start": 826,
"cds_end": null,
"cds_length": 960,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011526655.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.*68C>T",
"hgvs_p": null,
"transcript": "NM_001193286.2",
"protein_id": "NP_001180215.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 234,
"cds_start": null,
"cds_end": null,
"cds_length": 705,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001193286.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 13,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "c.*68C>T",
"hgvs_p": null,
"transcript": "ENST00000358931.9",
"protein_id": "ENSP00000351809.6",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 234,
"cds_start": null,
"cds_end": null,
"cds_length": 705,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000358931.9"
},
{
"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": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "n.4002C>T",
"hgvs_p": null,
"transcript": "ENST00000479290.5",
"protein_id": null,
"transcript_support_level": 2,
"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": "retained_intron",
"feature": "ENST00000479290.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 17,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "n.*903C>T",
"hgvs_p": null,
"transcript": "ENST00000851047.1",
"protein_id": "ENSP00000521116.1",
"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": "nonsense_mediated_decay",
"feature": "ENST00000851047.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 14,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "n.1261C>T",
"hgvs_p": null,
"transcript": "NR_034146.1",
"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_034146.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 17,
"exon_rank_end": null,
"exon_count": 17,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "n.*903C>T",
"hgvs_p": null,
"transcript": "ENST00000851047.1",
"protein_id": "ENSP00000521116.1",
"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": "nonsense_mediated_decay",
"feature": "ENST00000851047.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"downstream_gene_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"hgvs_c": "n.*5C>T",
"hgvs_p": null,
"transcript": "ENST00000496069.1",
"protein_id": null,
"transcript_support_level": 2,
"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": "retained_intron",
"feature": "ENST00000496069.1"
}
],
"gene_symbol": "SIRT2",
"gene_hgnc_id": 10886,
"dbsnp": "rs199855116",
"frequency_reference_population": 0.000013018041,
"hom_count_reference_population": 0,
"allele_count_reference_population": 21,
"gnomad_exomes_af": 0.0000136893,
"gnomad_genomes_af": 0.00000657237,
"gnomad_exomes_ac": 20,
"gnomad_genomes_ac": 1,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.2618137001991272,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.078,
"revel_prediction": "Benign",
"alphamissense_score": 0.1372,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.4,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 1.611,
"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": 0,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,BP4_Moderate",
"acmg_by_gene": [
{
"score": 0,
"benign_score": 2,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "NM_012237.4",
"gene_symbol": "SIRT2",
"hgnc_id": 10886,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1036C>T",
"hgvs_p": "p.Arg346Trp"
}
],
"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
}