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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: X-108187279-C-T (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=X&pos=108187279&ref=C&alt=T&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "X",
"pos": 108187279,
"ref": "C",
"alt": "T",
"effect": "missense_variant,splice_region_variant",
"transcript": "NM_001287758.2",
"consequences": [
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser",
"transcript": "NM_033641.4",
"protein_id": "NP_378667.1",
"transcript_support_level": null,
"aa_start": 590,
"aa_end": null,
"aa_length": 1690,
"cds_start": 1768,
"cds_end": null,
"cds_length": 5073,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000334504.12",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_033641.4"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser",
"transcript": "ENST00000334504.12",
"protein_id": "ENSP00000334733.7",
"transcript_support_level": 5,
"aa_start": 590,
"aa_end": null,
"aa_length": 1690,
"cds_start": 1768,
"cds_end": null,
"cds_length": 5073,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_033641.4",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000334504.12"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1771G>A",
"hgvs_p": "p.Gly591Ser",
"transcript": "ENST00000372216.8",
"protein_id": "ENSP00000361290.4",
"transcript_support_level": 1,
"aa_start": 591,
"aa_end": null,
"aa_length": 1691,
"cds_start": 1771,
"cds_end": null,
"cds_length": 5076,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000372216.8"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser",
"transcript": "ENST00000621266.4",
"protein_id": "ENSP00000482970.1",
"transcript_support_level": 1,
"aa_start": 590,
"aa_end": null,
"aa_length": 1666,
"cds_start": 1768,
"cds_end": null,
"cds_length": 5001,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000621266.4"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 43,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser",
"transcript": "ENST00000538570.5",
"protein_id": "ENSP00000445236.1",
"transcript_support_level": 1,
"aa_start": 590,
"aa_end": null,
"aa_length": 1633,
"cds_start": 1768,
"cds_end": null,
"cds_length": 4902,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000538570.5"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 46,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser",
"transcript": "NM_001287758.2",
"protein_id": "NP_001274687.1",
"transcript_support_level": null,
"aa_start": 590,
"aa_end": null,
"aa_length": 1707,
"cds_start": 1768,
"cds_end": null,
"cds_length": 5124,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001287758.2"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 46,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser",
"transcript": "ENST00000394872.6",
"protein_id": "ENSP00000378340.3",
"transcript_support_level": 5,
"aa_start": 590,
"aa_end": null,
"aa_length": 1707,
"cds_start": 1768,
"cds_end": null,
"cds_length": 5124,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000394872.6"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1771G>A",
"hgvs_p": "p.Gly591Ser",
"transcript": "NM_001847.4",
"protein_id": "NP_001838.2",
"transcript_support_level": null,
"aa_start": 591,
"aa_end": null,
"aa_length": 1691,
"cds_start": 1771,
"cds_end": null,
"cds_length": 5076,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001847.4"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1726G>A",
"hgvs_p": "p.Gly576Ser",
"transcript": "ENST00000962005.1",
"protein_id": "ENSP00000632064.1",
"transcript_support_level": null,
"aa_start": 576,
"aa_end": null,
"aa_length": 1676,
"cds_start": 1726,
"cds_end": null,
"cds_length": 5031,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000962005.1"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser",
"transcript": "NM_001287759.2",
"protein_id": "NP_001274688.1",
"transcript_support_level": null,
"aa_start": 590,
"aa_end": null,
"aa_length": 1666,
"cds_start": 1768,
"cds_end": null,
"cds_length": 5001,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001287759.2"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser",
"transcript": "ENST00000913236.1",
"protein_id": "ENSP00000583295.1",
"transcript_support_level": null,
"aa_start": 590,
"aa_end": null,
"aa_length": 1657,
"cds_start": 1768,
"cds_end": null,
"cds_length": 4974,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000913236.1"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 43,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser",
"transcript": "NM_001287760.2",
"protein_id": "NP_001274689.1",
"transcript_support_level": null,
"aa_start": 590,
"aa_end": null,
"aa_length": 1633,
"cds_start": 1768,
"cds_end": null,
"cds_length": 4902,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001287760.2"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 43,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1591G>A",
"hgvs_p": "p.Gly531Ser",
"transcript": "ENST00000913235.1",
"protein_id": "ENSP00000583294.1",
"transcript_support_level": null,
"aa_start": 531,
"aa_end": null,
"aa_length": 1631,
"cds_start": 1591,
"cds_end": null,
"cds_length": 4896,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000913235.1"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 22,
"exon_rank_end": null,
"exon_count": 43,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1660G>A",
"hgvs_p": "p.Gly554Ser",
"transcript": "ENST00000913234.1",
"protein_id": "ENSP00000583293.1",
"transcript_support_level": null,
"aa_start": 554,
"aa_end": null,
"aa_length": 1615,
"cds_start": 1660,
"cds_end": null,
"cds_length": 4848,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000913234.1"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 38,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1771G>A",
"hgvs_p": "p.Gly591Ser",
"transcript": "NM_001440759.1",
"protein_id": "NP_001427688.1",
"transcript_support_level": null,
"aa_start": 591,
"aa_end": null,
"aa_length": 1249,
"cds_start": 1771,
"cds_end": null,
"cds_length": 3750,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001440759.1"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 38,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser",
"transcript": "NM_001440760.1",
"protein_id": "NP_001427689.1",
"transcript_support_level": null,
"aa_start": 590,
"aa_end": null,
"aa_length": 1248,
"cds_start": 1768,
"cds_end": null,
"cds_length": 3747,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001440760.1"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 46,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1771G>A",
"hgvs_p": "p.Gly591Ser",
"transcript": "XM_006724617.4",
"protein_id": "XP_006724680.1",
"transcript_support_level": null,
"aa_start": 591,
"aa_end": null,
"aa_length": 1708,
"cds_start": 1771,
"cds_end": null,
"cds_length": 5127,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_006724617.4"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 45,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1771G>A",
"hgvs_p": "p.Gly591Ser",
"transcript": "XM_011530852.3",
"protein_id": "XP_011529154.1",
"transcript_support_level": null,
"aa_start": 591,
"aa_end": null,
"aa_length": 1684,
"cds_start": 1771,
"cds_end": null,
"cds_length": 5055,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011530852.3"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 21,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1687G>A",
"hgvs_p": "p.Gly563Ser",
"transcript": "XM_011530853.4",
"protein_id": "XP_011529155.1",
"transcript_support_level": null,
"aa_start": 563,
"aa_end": null,
"aa_length": 1680,
"cds_start": 1687,
"cds_end": null,
"cds_length": 5043,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011530853.4"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 44,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1771G>A",
"hgvs_p": "p.Gly591Ser",
"transcript": "XM_047441813.1",
"protein_id": "XP_047297769.1",
"transcript_support_level": null,
"aa_start": 591,
"aa_end": null,
"aa_length": 1667,
"cds_start": 1771,
"cds_end": null,
"cds_length": 5004,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047441813.1"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
"exon_rank_end": null,
"exon_count": 39,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"hgvs_c": "c.1771G>A",
"hgvs_p": "p.Gly591Ser",
"transcript": "XM_011530854.3",
"protein_id": "XP_011529156.1",
"transcript_support_level": null,
"aa_start": 591,
"aa_end": null,
"aa_length": 1266,
"cds_start": 1771,
"cds_end": null,
"cds_length": 3801,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_011530854.3"
},
{
"aa_ref": "G",
"aa_alt": "S",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant",
"splice_region_variant"
],
"exon_rank": 23,
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{
"aa_ref": "G",
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"missense_variant",
"splice_region_variant"
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"feature": "XM_047441818.1"
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{
"aa_ref": "G",
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"protein_coding": true,
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"missense_variant",
"splice_region_variant"
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"gene_symbol": "COL4A6",
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"hgvs_c": "c.1768G>A",
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"biotype": "protein_coding",
"feature": "XM_047441819.1"
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{
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"protein_coding": false,
"strand": false,
"consequences": [
"splice_region_variant",
"non_coding_transcript_exon_variant"
],
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"gene_symbol": "COL4A6",
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"hgvs_c": "n.1858G>A",
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"transcript": "XR_001755650.2",
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"mane_plus": null,
"biotype": "pseudogene",
"feature": "XR_001755650.2"
}
],
"gene_symbol": "COL4A6",
"gene_hgnc_id": 2208,
"dbsnp": "rs779748859",
"frequency_reference_population": 0.00002148595,
"hom_count_reference_population": 7,
"allele_count_reference_population": 24,
"gnomad_exomes_af": 0.0000208906,
"gnomad_genomes_af": 0.0000268399,
"gnomad_exomes_ac": 21,
"gnomad_genomes_ac": 3,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.9816442131996155,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.9459999799728394,
"splice_prediction_selected": "Pathogenic",
"splice_source_selected": "dbscSNV1_RF",
"revel_score": 0.971,
"revel_prediction": "Pathogenic",
"alphamissense_score": 0.1901,
"alphamissense_prediction": null,
"bayesdelnoaf_score": 0.74,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 6.376,
"phylop100way_prediction": "Uncertain_significance",
"spliceai_max_score": 0.03,
"spliceai_max_prediction": "Benign",
"dbscsnv_ada_score": 0.999653053642783,
"dbscsnv_ada_prediction": "Pathogenic",
"apogee2_score": null,
"apogee2_prediction": null,
"mitotip_score": null,
"mitotip_prediction": null,
"acmg_score": -1,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PP3,PP5_Moderate,BS2",
"acmg_by_gene": [
{
"score": -1,
"benign_score": 4,
"pathogenic_score": 3,
"criteria": [
"PP3",
"PP5_Moderate",
"BS2"
],
"verdict": "Likely_benign",
"transcript": "NM_001287758.2",
"gene_symbol": "COL4A6",
"hgnc_id": 2208,
"effects": [
"missense_variant",
"splice_region_variant"
],
"inheritance_mode": "XL",
"hgvs_c": "c.1768G>A",
"hgvs_p": "p.Gly590Ser"
}
],
"clinvar_disease": " X-linked 6,Hearing loss",
"clinvar_classification": "Likely pathogenic",
"clinvar_review_status": "criteria provided, single submitter",
"clinvar_submissions_summary": "P:1 LP:1",
"phenotype_combined": "Hearing loss, X-linked 6",
"pathogenicity_classification_combined": "Likely pathogenic",
"custom_annotations": null
}
],
"message": null
}