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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: 7-78019354-G-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=7&pos=78019354&ref=G&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "7",
"pos": 78019354,
"ref": "G",
"alt": "C",
"effect": "synonymous_variant",
"transcript": "NM_012301.4",
"consequences": [
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4329C>G",
"hgvs_p": "p.Pro1443Pro",
"transcript": "NM_012301.4",
"protein_id": "NP_036433.2",
"transcript_support_level": null,
"aa_start": 1443,
"aa_end": null,
"aa_length": 1455,
"cds_start": 4329,
"cds_end": null,
"cds_length": 4368,
"cdna_start": 4676,
"cdna_end": null,
"cdna_length": 6975,
"mane_select": "ENST00000354212.9",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4329C>G",
"hgvs_p": "p.Pro1443Pro",
"transcript": "ENST00000354212.9",
"protein_id": "ENSP00000346151.4",
"transcript_support_level": 1,
"aa_start": 1443,
"aa_end": null,
"aa_length": 1455,
"cds_start": 4329,
"cds_end": null,
"cds_length": 4368,
"cdna_start": 4676,
"cdna_end": null,
"cdna_length": 6975,
"mane_select": "NM_012301.4",
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4287C>G",
"hgvs_p": "p.Pro1429Pro",
"transcript": "ENST00000419488.5",
"protein_id": "ENSP00000405766.1",
"transcript_support_level": 1,
"aa_start": 1429,
"aa_end": null,
"aa_length": 1441,
"cds_start": 4287,
"cds_end": null,
"cds_length": 4326,
"cdna_start": 4522,
"cdna_end": null,
"cdna_length": 6800,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4287C>G",
"hgvs_p": "p.Pro1429Pro",
"transcript": "NM_001301128.2",
"protein_id": "NP_001288057.1",
"transcript_support_level": null,
"aa_start": 1429,
"aa_end": null,
"aa_length": 1441,
"cds_start": 4287,
"cds_end": null,
"cds_length": 4326,
"cdna_start": 4634,
"cdna_end": null,
"cdna_length": 6933,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 25,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4584C>G",
"hgvs_p": "p.Pro1528Pro",
"transcript": "XM_017012840.3",
"protein_id": "XP_016868329.1",
"transcript_support_level": null,
"aa_start": 1528,
"aa_end": null,
"aa_length": 1540,
"cds_start": 4584,
"cds_end": null,
"cds_length": 4623,
"cdna_start": 4931,
"cdna_end": null,
"cdna_length": 7230,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 25,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4581C>G",
"hgvs_p": "p.Pro1527Pro",
"transcript": "XM_017012841.3",
"protein_id": "XP_016868330.1",
"transcript_support_level": null,
"aa_start": 1527,
"aa_end": null,
"aa_length": 1539,
"cds_start": 4581,
"cds_end": null,
"cds_length": 4620,
"cdna_start": 4928,
"cdna_end": null,
"cdna_length": 7227,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 25,
"exon_rank_end": null,
"exon_count": 25,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4578C>G",
"hgvs_p": "p.Pro1526Pro",
"transcript": "XM_017012842.3",
"protein_id": "XP_016868331.1",
"transcript_support_level": null,
"aa_start": 1526,
"aa_end": null,
"aa_length": 1538,
"cds_start": 4578,
"cds_end": null,
"cds_length": 4617,
"cdna_start": 4925,
"cdna_end": null,
"cdna_length": 7224,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4542C>G",
"hgvs_p": "p.Pro1514Pro",
"transcript": "XM_017012843.3",
"protein_id": "XP_016868332.1",
"transcript_support_level": null,
"aa_start": 1514,
"aa_end": null,
"aa_length": 1526,
"cds_start": 4542,
"cds_end": null,
"cds_length": 4581,
"cdna_start": 4889,
"cdna_end": null,
"cdna_length": 7188,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 23,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4458C>G",
"hgvs_p": "p.Pro1486Pro",
"transcript": "XM_017012844.3",
"protein_id": "XP_016868333.1",
"transcript_support_level": null,
"aa_start": 1486,
"aa_end": null,
"aa_length": 1498,
"cds_start": 4458,
"cds_end": null,
"cds_length": 4497,
"cdna_start": 4805,
"cdna_end": null,
"cdna_length": 7104,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4455C>G",
"hgvs_p": "p.Pro1485Pro",
"transcript": "XM_011516718.3",
"protein_id": "XP_011515020.1",
"transcript_support_level": null,
"aa_start": 1485,
"aa_end": null,
"aa_length": 1497,
"cds_start": 4455,
"cds_end": null,
"cds_length": 4494,
"cdna_start": 4802,
"cdna_end": null,
"cdna_length": 7101,
"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4449C>G",
"hgvs_p": "p.Pro1483Pro",
"transcript": "XM_017012845.3",
"protein_id": "XP_016868334.1",
"transcript_support_level": null,
"aa_start": 1483,
"aa_end": null,
"aa_length": 1495,
"cds_start": 4449,
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"cds_length": 4488,
"cdna_start": 4796,
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"cdna_length": 7095,
"mane_select": null,
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"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 22,
"intron_rank": null,
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"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4416C>G",
"hgvs_p": "p.Pro1472Pro",
"transcript": "XM_047421092.1",
"protein_id": "XP_047277048.1",
"transcript_support_level": null,
"aa_start": 1472,
"aa_end": null,
"aa_length": 1484,
"cds_start": 4416,
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"cds_length": 4455,
"cdna_start": 4763,
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"cdna_length": 7062,
"mane_select": null,
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"biotype": null,
"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 23,
"intron_rank": null,
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"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4413C>G",
"hgvs_p": "p.Pro1471Pro",
"transcript": "XM_017012846.3",
"protein_id": "XP_016868335.1",
"transcript_support_level": null,
"aa_start": 1471,
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"aa_length": 1483,
"cds_start": 4413,
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"cdna_start": 4760,
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"mane_select": null,
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"feature": null
},
{
"aa_ref": "P",
"aa_alt": "P",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 22,
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"exon_count": 22,
"intron_rank": null,
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"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4323C>G",
"hgvs_p": "p.Pro1441Pro",
"transcript": "XM_047421093.1",
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"cdna_start": 4670,
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"feature": null
},
{
"aa_ref": "P",
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"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 24,
"exon_rank_end": null,
"exon_count": 24,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.4095C>G",
"hgvs_p": "p.Pro1365Pro",
"transcript": "XM_011516720.4",
"protein_id": "XP_011515022.1",
"transcript_support_level": null,
"aa_start": 1365,
"aa_end": null,
"aa_length": 1377,
"cds_start": 4095,
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"cdna_start": 56925,
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"mane_select": null,
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"biotype": null,
"feature": null
},
{
"aa_ref": "P",
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"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 25,
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"exon_count": 25,
"intron_rank": null,
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"gene_symbol": "MAGI2",
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"hgvs_c": "c.4095C>G",
"hgvs_p": "p.Pro1365Pro",
"transcript": "XM_017012847.3",
"protein_id": "XP_016868336.1",
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"mane_select": null,
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"feature": null
},
{
"aa_ref": "P",
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"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"synonymous_variant"
],
"exon_rank": 20,
"exon_rank_end": null,
"exon_count": 20,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.3282C>G",
"hgvs_p": "p.Pro1094Pro",
"transcript": "XM_011516728.2",
"protein_id": "XP_011515030.1",
"transcript_support_level": null,
"aa_start": 1094,
"aa_end": null,
"aa_length": 1106,
"cds_start": 3282,
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"cdna_start": 3558,
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"mane_select": null,
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"biotype": null,
"feature": null
},
{
"aa_ref": null,
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"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 23,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.*566C>G",
"hgvs_p": null,
"transcript": "ENST00000522391.3",
"protein_id": "ENSP00000428389.1",
"transcript_support_level": 5,
"aa_start": null,
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"cds_start": -4,
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},
{
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"protein_coding": true,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 22,
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"exon_count": 22,
"intron_rank": null,
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"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.*566C>G",
"hgvs_p": null,
"transcript": "ENST00000626691.2",
"protein_id": "ENSP00000486131.1",
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},
{
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"protein_coding": true,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 21,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
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"hgvs_c": "c.*566C>G",
"hgvs_p": null,
"transcript": "ENST00000629359.2",
"protein_id": "ENSP00000487448.1",
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},
{
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"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
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"exon_count": 21,
"intron_rank": 20,
"intron_rank_end": null,
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"hgvs_c": "c.3532-139C>G",
"hgvs_p": null,
"transcript": "ENST00000637441.1",
"protein_id": "ENSP00000489633.1",
"transcript_support_level": 5,
"aa_start": null,
"aa_end": null,
"aa_length": 1206,
"cds_start": -4,
"cds_end": null,
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"cdna_start": null,
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"mane_select": null,
"mane_plus": null,
"biotype": null,
"feature": null
}
],
"gene_symbol": "MAGI2",
"gene_hgnc_id": 18957,
"dbsnp": "rs13438302",
"frequency_reference_population": 0.23405157,
"hom_count_reference_population": 48992,
"allele_count_reference_population": 353159,
"gnomad_exomes_af": 0.227087,
"gnomad_genomes_af": 0.29699,
"gnomad_exomes_ac": 308509,
"gnomad_genomes_ac": 44650,
"gnomad_exomes_homalt": 41145,
"gnomad_genomes_homalt": 7847,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": -0.7099999785423279,
"computational_prediction_selected": "Benign",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.71,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -0.794,
"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": -21,
"acmg_classification": "Benign",
"acmg_criteria": "BP4_Strong,BP6_Very_Strong,BP7,BA1",
"acmg_by_gene": [
{
"score": -21,
"benign_score": 21,
"pathogenic_score": 0,
"criteria": [
"BP4_Strong",
"BP6_Very_Strong",
"BP7",
"BA1"
],
"verdict": "Benign",
"transcript": "NM_012301.4",
"gene_symbol": "MAGI2",
"hgnc_id": 18957,
"effects": [
"synonymous_variant"
],
"inheritance_mode": "AD,AR",
"hgvs_c": "c.4329C>G",
"hgvs_p": "p.Pro1443Pro"
}
],
"clinvar_disease": "Nephrotic syndrome 15,not provided,not specified",
"clinvar_classification": "Benign",
"clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
"clinvar_submissions_summary": "B:7",
"phenotype_combined": "not specified|not provided|Nephrotic syndrome 15",
"pathogenicity_classification_combined": "Benign",
"custom_annotations": null
}
],
"message": null
}