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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: 5-134304540-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=5&pos=134304540&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "5",
"pos": 134304540,
"ref": "C",
"alt": "T",
"effect": "missense_variant",
"transcript": "NM_001113575.2",
"consequences": [
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1486G>A",
"hgvs_p": "p.Glu496Lys",
"transcript": "NM_001113575.2",
"protein_id": "NP_001107047.1",
"transcript_support_level": null,
"aa_start": 496,
"aa_end": null,
"aa_length": 592,
"cds_start": 1486,
"cds_end": null,
"cds_length": 1779,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000265334.9",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001113575.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1486G>A",
"hgvs_p": "p.Glu496Lys",
"transcript": "ENST00000265334.9",
"protein_id": "ENSP00000265334.4",
"transcript_support_level": 1,
"aa_start": 496,
"aa_end": null,
"aa_length": 592,
"cds_start": 1486,
"cds_end": null,
"cds_length": 1779,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_001113575.2",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000265334.9"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "n.*444G>A",
"hgvs_p": null,
"transcript": "ENST00000519312.5",
"protein_id": "ENSP00000427738.1",
"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": "ENST00000519312.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "n.*444G>A",
"hgvs_p": null,
"transcript": "ENST00000519312.5",
"protein_id": "ENSP00000427738.1",
"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": "ENST00000519312.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": true,
"protein_coding": false,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": 2,
"intron_rank_end": null,
"gene_symbol": "ENSG00000273345",
"gene_hgnc_id": null,
"hgvs_c": "n.86-1853G>A",
"hgvs_p": null,
"transcript": "ENST00000703317.1",
"protein_id": "ENSP00000515260.1",
"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": "ENST00000703317.1"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1486G>A",
"hgvs_p": "p.Glu496Lys",
"transcript": "ENST00000521118.5",
"protein_id": "ENSP00000428689.1",
"transcript_support_level": 5,
"aa_start": 496,
"aa_end": null,
"aa_length": 590,
"cds_start": 1486,
"cds_end": null,
"cds_length": 1773,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000521118.5"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.919G>A",
"hgvs_p": "p.Glu307Lys",
"transcript": "NM_001349363.2",
"protein_id": "NP_001336292.1",
"transcript_support_level": null,
"aa_start": 307,
"aa_end": null,
"aa_length": 418,
"cds_start": 919,
"cds_end": null,
"cds_length": 1257,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001349363.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.919G>A",
"hgvs_p": "p.Glu307Lys",
"transcript": "NM_001300853.2",
"protein_id": "NP_001287782.1",
"transcript_support_level": null,
"aa_start": 307,
"aa_end": null,
"aa_length": 401,
"cds_start": 919,
"cds_end": null,
"cds_length": 1206,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001300853.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.919G>A",
"hgvs_p": "p.Glu307Lys",
"transcript": "ENST00000523054.5",
"protein_id": "ENSP00000428500.1",
"transcript_support_level": 2,
"aa_start": 307,
"aa_end": null,
"aa_length": 401,
"cds_start": 919,
"cds_end": null,
"cds_length": 1206,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000523054.5"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.601G>A",
"hgvs_p": "p.Glu201Lys",
"transcript": "NM_001349364.2",
"protein_id": "NP_001336293.1",
"transcript_support_level": null,
"aa_start": 201,
"aa_end": null,
"aa_length": 312,
"cds_start": 601,
"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_001349364.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.601G>A",
"hgvs_p": "p.Glu201Lys",
"transcript": "NM_001349365.2",
"protein_id": "NP_001336294.1",
"transcript_support_level": null,
"aa_start": 201,
"aa_end": null,
"aa_length": 312,
"cds_start": 601,
"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_001349365.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.601G>A",
"hgvs_p": "p.Glu201Lys",
"transcript": "NM_001349366.2",
"protein_id": "NP_001336295.1",
"transcript_support_level": null,
"aa_start": 201,
"aa_end": null,
"aa_length": 312,
"cds_start": 601,
"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_001349366.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1522G>A",
"hgvs_p": "p.Glu508Lys",
"transcript": "XM_011543429.3",
"protein_id": "XP_011541731.1",
"transcript_support_level": null,
"aa_start": 508,
"aa_end": null,
"aa_length": 619,
"cds_start": 1522,
"cds_end": null,
"cds_length": 1860,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011543429.3"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1522G>A",
"hgvs_p": "p.Glu508Lys",
"transcript": "XM_024446086.2",
"protein_id": "XP_024301854.1",
"transcript_support_level": null,
"aa_start": 508,
"aa_end": null,
"aa_length": 619,
"cds_start": 1522,
"cds_end": null,
"cds_length": 1860,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_024446086.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1522G>A",
"hgvs_p": "p.Glu508Lys",
"transcript": "XM_024446087.2",
"protein_id": "XP_024301855.1",
"transcript_support_level": null,
"aa_start": 508,
"aa_end": null,
"aa_length": 619,
"cds_start": 1522,
"cds_end": null,
"cds_length": 1860,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_024446087.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1522G>A",
"hgvs_p": "p.Glu508Lys",
"transcript": "XM_047417267.1",
"protein_id": "XP_047273223.1",
"transcript_support_level": null,
"aa_start": 508,
"aa_end": null,
"aa_length": 619,
"cds_start": 1522,
"cds_end": null,
"cds_length": 1860,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047417267.1"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1486G>A",
"hgvs_p": "p.Glu496Lys",
"transcript": "XM_017009532.2",
"protein_id": "XP_016865021.1",
"transcript_support_level": null,
"aa_start": 496,
"aa_end": null,
"aa_length": 607,
"cds_start": 1486,
"cds_end": null,
"cds_length": 1824,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017009532.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1486G>A",
"hgvs_p": "p.Glu496Lys",
"transcript": "XM_024446088.2",
"protein_id": "XP_024301856.1",
"transcript_support_level": null,
"aa_start": 496,
"aa_end": null,
"aa_length": 607,
"cds_start": 1486,
"cds_end": null,
"cds_length": 1824,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_024446088.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 11,
"exon_rank_end": null,
"exon_count": 14,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1486G>A",
"hgvs_p": "p.Glu496Lys",
"transcript": "XM_024446089.2",
"protein_id": "XP_024301857.1",
"transcript_support_level": null,
"aa_start": 496,
"aa_end": null,
"aa_length": 607,
"cds_start": 1486,
"cds_end": null,
"cds_length": 1824,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_024446089.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1522G>A",
"hgvs_p": "p.Glu508Lys",
"transcript": "XM_017009533.2",
"protein_id": "XP_016865022.1",
"transcript_support_level": null,
"aa_start": 508,
"aa_end": null,
"aa_length": 604,
"cds_start": 1522,
"cds_end": null,
"cds_length": 1815,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017009533.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 13,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1522G>A",
"hgvs_p": "p.Glu508Lys",
"transcript": "XM_017009534.2",
"protein_id": "XP_016865023.1",
"transcript_support_level": null,
"aa_start": 508,
"aa_end": null,
"aa_length": 602,
"cds_start": 1522,
"cds_end": null,
"cds_length": 1809,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_017009534.2"
},
{
"aa_ref": "E",
"aa_alt": "K",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 10,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "CDKL3",
"gene_hgnc_id": 15483,
"hgvs_c": "c.1522G>A",
"hgvs_p": "p.Glu508Lys",
"transcript": "XM_024446090.2",
"protein_id": "XP_024301858.1",
"transcript_support_level": null,
"aa_start": 508,
"aa_end": null,
"aa_length": 602,
"cds_start": 1522,
"cds_end": null,
"cds_length": 1809,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
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"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.11,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 4.239,
"phylop100way_prediction": "Uncertain_significance",
"spliceai_max_score": 0.02,
"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": 1,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,BP4",
"acmg_by_gene": [
{
"score": 1,
"benign_score": 1,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4"
],
"verdict": "Uncertain_significance",
"transcript": "NM_001113575.2",
"gene_symbol": "CDKL3",
"hgnc_id": 15483,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.1486G>A",
"hgvs_p": "p.Glu496Lys"
},
{
"score": 1,
"benign_score": 1,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4"
],
"verdict": "Uncertain_significance",
"transcript": "ENST00000703317.1",
"gene_symbol": "ENSG00000273345",
"hgnc_id": null,
"effects": [
"intron_variant"
],
"inheritance_mode": "",
"hgvs_c": "n.86-1853G>A",
"hgvs_p": null
}
],
"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
}