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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: 19-10151759-T-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=19&pos=10151759&ref=T&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "19",
"pos": 10151759,
"ref": "T",
"alt": "C",
"effect": "missense_variant",
"transcript": "ENST00000359526.9",
"consequences": [
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 41,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.2108A>G",
"hgvs_p": "p.Gln703Arg",
"transcript": "NM_001130823.3",
"protein_id": "NP_001124295.1",
"transcript_support_level": null,
"aa_start": 703,
"aa_end": null,
"aa_length": 1632,
"cds_start": 2108,
"cds_end": null,
"cds_length": 4899,
"cdna_start": 2162,
"cdna_end": null,
"cdna_length": 5274,
"mane_select": "ENST00000359526.9",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 41,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.2108A>G",
"hgvs_p": "p.Gln703Arg",
"transcript": "ENST00000359526.9",
"protein_id": "ENSP00000352516.3",
"transcript_support_level": 1,
"aa_start": 703,
"aa_end": null,
"aa_length": 1632,
"cds_start": 2108,
"cds_end": null,
"cds_length": 4899,
"cdna_start": 2162,
"cdna_end": null,
"cdna_length": 5274,
"mane_select": "NM_001130823.3",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 40,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.2060A>G",
"hgvs_p": "p.Gln687Arg",
"transcript": "ENST00000340748.8",
"protein_id": "ENSP00000345739.3",
"transcript_support_level": 1,
"aa_start": 687,
"aa_end": null,
"aa_length": 1616,
"cds_start": 2060,
"cds_end": null,
"cds_length": 4851,
"cdna_start": 2296,
"cdna_end": null,
"cdna_length": 5408,
"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": 23,
"exon_rank_end": null,
"exon_count": 41,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.*1798A>G",
"hgvs_p": null,
"transcript": "ENST00000592705.5",
"protein_id": "ENSP00000466657.1",
"transcript_support_level": 1,
"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": 5215,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 41,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.*1798A>G",
"hgvs_p": null,
"transcript": "ENST00000592705.5",
"protein_id": "ENSP00000466657.1",
"transcript_support_level": 1,
"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": 5215,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.2060A>G",
"hgvs_p": "p.Gln687Arg",
"transcript": "ENST00000678804.1",
"protein_id": "ENSP00000503853.1",
"transcript_support_level": null,
"aa_start": 687,
"aa_end": null,
"aa_length": 1658,
"cds_start": 2060,
"cds_end": null,
"cds_length": 4977,
"cdna_start": 2116,
"cdna_end": null,
"cdna_length": 5728,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.2060A>G",
"hgvs_p": "p.Gln687Arg",
"transcript": "ENST00000677946.1",
"protein_id": "ENSP00000504202.1",
"transcript_support_level": null,
"aa_start": 687,
"aa_end": null,
"aa_length": 1655,
"cds_start": 2060,
"cds_end": null,
"cds_length": 4968,
"cdna_start": 2116,
"cdna_end": null,
"cdna_length": 5665,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 40,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.2060A>G",
"hgvs_p": "p.Gln687Arg",
"transcript": "NM_001318730.2",
"protein_id": "NP_001305659.1",
"transcript_support_level": null,
"aa_start": 687,
"aa_end": null,
"aa_length": 1619,
"cds_start": 2060,
"cds_end": null,
"cds_length": 4860,
"cdna_start": 2114,
"cdna_end": null,
"cdna_length": 5235,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 40,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.2060A>G",
"hgvs_p": "p.Gln687Arg",
"transcript": "NM_001379.4",
"protein_id": "NP_001370.1",
"transcript_support_level": null,
"aa_start": 687,
"aa_end": null,
"aa_length": 1616,
"cds_start": 2060,
"cds_end": null,
"cds_length": 4851,
"cdna_start": 2114,
"cdna_end": null,
"cdna_length": 5226,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 38,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.2060A>G",
"hgvs_p": "p.Gln687Arg",
"transcript": "ENST00000676610.1",
"protein_id": "ENSP00000504236.1",
"transcript_support_level": null,
"aa_start": 687,
"aa_end": null,
"aa_length": 1613,
"cds_start": 2060,
"cds_end": null,
"cds_length": 4842,
"cdna_start": 2116,
"cdna_end": null,
"cdna_length": 7157,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.2060A>G",
"hgvs_p": "p.Gln687Arg",
"transcript": "ENST00000679313.1",
"protein_id": "ENSP00000504512.1",
"transcript_support_level": null,
"aa_start": 687,
"aa_end": null,
"aa_length": 1580,
"cds_start": 2060,
"cds_end": null,
"cds_length": 4743,
"cdna_start": 2116,
"cdna_end": null,
"cdna_length": 5122,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.2060A>G",
"hgvs_p": "p.Gln687Arg",
"transcript": "ENST00000679103.1",
"protein_id": "ENSP00000503151.1",
"transcript_support_level": null,
"aa_start": 687,
"aa_end": null,
"aa_length": 1577,
"cds_start": 2060,
"cds_end": null,
"cds_length": 4734,
"cdna_start": 2116,
"cdna_end": null,
"cdna_length": 5126,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "Q",
"aa_alt": "R",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 41,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "c.1745A>G",
"hgvs_p": "p.Gln582Arg",
"transcript": "NM_001318731.2",
"protein_id": "NP_001305660.1",
"transcript_support_level": null,
"aa_start": 582,
"aa_end": null,
"aa_length": 1511,
"cds_start": 1745,
"cds_end": null,
"cds_length": 4536,
"cdna_start": 2122,
"cdna_end": null,
"cdna_length": 5234,
"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": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.*328A>G",
"hgvs_p": null,
"transcript": "ENST00000586799.1",
"protein_id": "ENSP00000467260.1",
"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": 672,
"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": 19,
"exon_rank_end": null,
"exon_count": 37,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.1720A>G",
"hgvs_p": null,
"transcript": "ENST00000676604.1",
"protein_id": null,
"transcript_support_level": null,
"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": 4821,
"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": 22,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.2116A>G",
"hgvs_p": null,
"transcript": "ENST00000676820.1",
"protein_id": null,
"transcript_support_level": null,
"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": 6055,
"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": 12,
"exon_rank_end": null,
"exon_count": 30,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.2744A>G",
"hgvs_p": null,
"transcript": "ENST00000676868.1",
"protein_id": null,
"transcript_support_level": null,
"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": 5845,
"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": 22,
"exon_rank_end": null,
"exon_count": 40,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.*1750A>G",
"hgvs_p": null,
"transcript": "ENST00000677013.1",
"protein_id": "ENSP00000503135.1",
"transcript_support_level": null,
"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": 5175,
"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": 21,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.*1180A>G",
"hgvs_p": null,
"transcript": "ENST00000677250.1",
"protein_id": "ENSP00000502894.1",
"transcript_support_level": null,
"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": 5127,
"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": 21,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.1751A>G",
"hgvs_p": null,
"transcript": "ENST00000677616.1",
"protein_id": "ENSP00000503055.1",
"transcript_support_level": null,
"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": 5101,
"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": 22,
"exon_rank_end": null,
"exon_count": 40,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.2060A>G",
"hgvs_p": null,
"transcript": "ENST00000677634.1",
"protein_id": "ENSP00000504246.1",
"transcript_support_level": null,
"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": 5165,
"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": 21,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.*1285A>G",
"hgvs_p": null,
"transcript": "ENST00000677685.1",
"protein_id": "ENSP00000503407.1",
"transcript_support_level": null,
"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": 4974,
"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": 12,
"exon_rank_end": null,
"exon_count": 29,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "DNMT1",
"gene_hgnc_id": 2976,
"hgvs_c": "n.2530A>G",
"hgvs_p": null,
"transcript": "ENST00000677783.1",
"protein_id": null,
"transcript_support_level": null,
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}
],
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"computational_score_selected": 0.059686750173568726,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.024,
"revel_prediction": "Benign",
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"bayesdelnoaf_score": -0.62,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": 0.759,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0,
"spliceai_max_prediction": "Benign",
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"acmg_score": -2,
"acmg_classification": "Likely_benign",
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"acmg_by_gene": [
{
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"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "ENST00000359526.9",
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"effects": [
"missense_variant"
],
"inheritance_mode": "AD",
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}
],
"clinvar_disease": "Hereditary sensory neuropathy-deafness-dementia syndrome",
"clinvar_classification": "Uncertain significance",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "US:1",
"phenotype_combined": "Hereditary sensory neuropathy-deafness-dementia syndrome",
"pathogenicity_classification_combined": "Uncertain significance",
"custom_annotations": null
}
],
"message": null
}