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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: 2-240876002-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=240876002&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 240876002,
"ref": "C",
"alt": "T",
"effect": "stop_gained,splice_region_variant",
"transcript": "NM_000030.3",
"consequences": [
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*",
"transcript": "NM_000030.3",
"protein_id": "NP_000021.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 392,
"cds_start": 844,
"cds_end": null,
"cds_length": 1179,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000307503.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_000030.3"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": true,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*",
"transcript": "ENST00000307503.4",
"protein_id": "ENSP00000302620.3",
"transcript_support_level": 1,
"aa_start": 282,
"aa_end": null,
"aa_length": 392,
"cds_start": 844,
"cds_end": null,
"cds_length": 1179,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_000030.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000307503.4"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*",
"transcript": "ENST00000908235.1",
"protein_id": "ENSP00000578294.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 483,
"cds_start": 844,
"cds_end": null,
"cds_length": 1452,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908235.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*",
"transcript": "ENST00000908236.1",
"protein_id": "ENSP00000578295.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 455,
"cds_start": 844,
"cds_end": null,
"cds_length": 1368,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908236.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*",
"transcript": "ENST00000908246.1",
"protein_id": "ENSP00000578305.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 441,
"cds_start": 844,
"cds_end": null,
"cds_length": 1326,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908246.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.925C>T",
"hgvs_p": "p.Gln309*",
"transcript": "ENST00000908247.1",
"protein_id": "ENSP00000578306.1",
"transcript_support_level": null,
"aa_start": 309,
"aa_end": null,
"aa_length": 419,
"cds_start": 925,
"cds_end": null,
"cds_length": 1260,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908247.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*",
"transcript": "ENST00000908244.1",
"protein_id": "ENSP00000578303.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 417,
"cds_start": 844,
"cds_end": null,
"cds_length": 1254,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908244.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.895C>T",
"hgvs_p": "p.Gln299*",
"transcript": "ENST00000908232.1",
"protein_id": "ENSP00000578291.1",
"transcript_support_level": null,
"aa_start": 299,
"aa_end": null,
"aa_length": 409,
"cds_start": 895,
"cds_end": null,
"cds_length": 1230,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908232.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 12,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.886C>T",
"hgvs_p": "p.Gln296*",
"transcript": "ENST00000908229.1",
"protein_id": "ENSP00000578288.1",
"transcript_support_level": null,
"aa_start": 296,
"aa_end": null,
"aa_length": 406,
"cds_start": 886,
"cds_end": null,
"cds_length": 1221,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908229.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.862C>T",
"hgvs_p": "p.Gln288*",
"transcript": "ENST00000908228.1",
"protein_id": "ENSP00000578287.1",
"transcript_support_level": null,
"aa_start": 288,
"aa_end": null,
"aa_length": 398,
"cds_start": 862,
"cds_end": null,
"cds_length": 1197,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908228.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.862C>T",
"hgvs_p": "p.Gln288*",
"transcript": "ENST00000908243.1",
"protein_id": "ENSP00000578302.1",
"transcript_support_level": null,
"aa_start": 288,
"aa_end": null,
"aa_length": 398,
"cds_start": 862,
"cds_end": null,
"cds_length": 1197,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908243.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.862C>T",
"hgvs_p": "p.Gln288*",
"transcript": "ENST00000908245.1",
"protein_id": "ENSP00000578304.1",
"transcript_support_level": null,
"aa_start": 288,
"aa_end": null,
"aa_length": 398,
"cds_start": 862,
"cds_end": null,
"cds_length": 1197,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908245.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.841C>T",
"hgvs_p": "p.Gln281*",
"transcript": "ENST00000908242.1",
"protein_id": "ENSP00000578301.1",
"transcript_support_level": null,
"aa_start": 281,
"aa_end": null,
"aa_length": 391,
"cds_start": 841,
"cds_end": null,
"cds_length": 1176,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908242.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.835C>T",
"hgvs_p": "p.Gln279*",
"transcript": "ENST00000908230.1",
"protein_id": "ENSP00000578289.1",
"transcript_support_level": null,
"aa_start": 279,
"aa_end": null,
"aa_length": 389,
"cds_start": 835,
"cds_end": null,
"cds_length": 1170,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908230.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.832C>T",
"hgvs_p": "p.Gln278*",
"transcript": "ENST00000908238.1",
"protein_id": "ENSP00000578297.1",
"transcript_support_level": null,
"aa_start": 278,
"aa_end": null,
"aa_length": 388,
"cds_start": 832,
"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": "ENST00000908238.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.793C>T",
"hgvs_p": "p.Gln265*",
"transcript": "ENST00000908231.1",
"protein_id": "ENSP00000578290.1",
"transcript_support_level": null,
"aa_start": 265,
"aa_end": null,
"aa_length": 375,
"cds_start": 793,
"cds_end": null,
"cds_length": 1128,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908231.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*",
"transcript": "ENST00000908241.1",
"protein_id": "ENSP00000578300.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 373,
"cds_start": 844,
"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": "ENST00000908241.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 11,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*",
"transcript": "ENST00000908240.1",
"protein_id": "ENSP00000578299.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 370,
"cds_start": 844,
"cds_end": null,
"cds_length": 1113,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908240.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*",
"transcript": "ENST00000908233.1",
"protein_id": "ENSP00000578292.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 360,
"cds_start": 844,
"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": "ENST00000908233.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*",
"transcript": "ENST00000908237.1",
"protein_id": "ENSP00000578296.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 349,
"cds_start": 844,
"cds_end": null,
"cds_length": 1050,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908237.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.688C>T",
"hgvs_p": "p.Gln230*",
"transcript": "ENST00000908227.1",
"protein_id": "ENSP00000578286.1",
"transcript_support_level": null,
"aa_start": 230,
"aa_end": null,
"aa_length": 340,
"cds_start": 688,
"cds_end": null,
"cds_length": 1023,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000908227.1"
},
{
"aa_ref": "Q",
"aa_alt": "*",
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"stop_gained",
"splice_region_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "AGXT",
"gene_hgnc_id": 341,
"hgvs_c": "c.658C>T",
"hgvs_p": "p.Gln220*",
"transcript": "ENST00000908234.1",
"protein_id": "ENSP00000578293.1",
"transcript_support_level": null,
"aa_start": 220,
"aa_end": null,
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{
"aa_ref": "Q",
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"consequences": [
"stop_gained",
"splice_region_variant"
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"exon_count": 9,
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"gene_symbol": "AGXT",
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"hgvs_c": "c.574C>T",
"hgvs_p": "p.Gln192*",
"transcript": "ENST00000908239.1",
"protein_id": "ENSP00000578298.1",
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},
{
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"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"non_coding_transcript_exon_variant"
],
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"exon_count": 4,
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"gene_symbol": "AGXT",
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"hgvs_c": "n.496C>T",
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"transcript": "ENST00000476698.1",
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"transcript_support_level": 5,
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"biotype": "retained_intron",
"feature": "ENST00000476698.1"
}
],
"gene_symbol": "AGXT",
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"dbsnp": "rs180177279",
"frequency_reference_population": 6.840947e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 6.84095e-7,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 1,
"gnomad_genomes_ac": null,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.41999998688697815,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "BayesDel_noAF",
"splice_score_selected": 0.8939999938011169,
"splice_prediction_selected": "Pathogenic",
"splice_source_selected": "dbscSNV1_RF",
"revel_score": null,
"revel_prediction": null,
"alphamissense_score": null,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.42,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 0.152,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.6,
"spliceai_max_prediction": "Pathogenic",
"dbscsnv_ada_score": 0.999254965514455,
"dbscsnv_ada_prediction": "Pathogenic",
"apogee2_score": null,
"apogee2_prediction": null,
"mitotip_score": null,
"mitotip_prediction": null,
"acmg_score": 12,
"acmg_classification": "Pathogenic",
"acmg_criteria": "PVS1,PM2,PP3,PP5",
"acmg_by_gene": [
{
"score": 12,
"benign_score": 0,
"pathogenic_score": 12,
"criteria": [
"PVS1",
"PM2",
"PP3",
"PP5"
],
"verdict": "Pathogenic",
"transcript": "NM_000030.3",
"gene_symbol": "AGXT",
"hgnc_id": 341,
"effects": [
"stop_gained",
"splice_region_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.844C>T",
"hgvs_p": "p.Gln282*"
}
],
"clinvar_disease": " type I,Primary hyperoxaluria",
"clinvar_classification": "Pathogenic",
"clinvar_review_status": "no assertion criteria provided",
"clinvar_submissions_summary": "null",
"phenotype_combined": "Primary hyperoxaluria, type I",
"pathogenicity_classification_combined": "Pathogenic",
"custom_annotations": null
}
],
"message": null
}