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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: 2-199933125-T-C (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=199933125&ref=T&alt=C&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "2",
"pos": 199933125,
"ref": "T",
"alt": "C",
"effect": "missense_variant",
"transcript": "NM_001039693.3",
"consequences": [
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.890A>G",
"hgvs_p": "p.Tyr297Cys",
"transcript": "NM_001039693.3",
"protein_id": "NP_001034782.1",
"transcript_support_level": null,
"aa_start": 297,
"aa_end": null,
"aa_length": 315,
"cds_start": 890,
"cds_end": null,
"cds_length": 948,
"cdna_start": 911,
"cdna_end": null,
"cdna_length": 5123,
"mane_select": "ENST00000354611.9",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001039693.3"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.890A>G",
"hgvs_p": "p.Tyr297Cys",
"transcript": "ENST00000354611.9",
"protein_id": "ENSP00000346627.4",
"transcript_support_level": 1,
"aa_start": 297,
"aa_end": null,
"aa_length": 315,
"cds_start": 890,
"cds_end": null,
"cds_length": 948,
"cdna_start": 911,
"cdna_end": null,
"cdna_length": 5123,
"mane_select": "NM_001039693.3",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000354611.9"
},
{
"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": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "n.*417A>G",
"hgvs_p": null,
"transcript": "ENST00000441832.1",
"protein_id": "ENSP00000398447.1",
"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": 2042,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000441832.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "n.*505A>G",
"hgvs_p": null,
"transcript": "ENST00000483328.5",
"protein_id": "ENSP00000420024.1",
"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": 4287,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000483328.5"
},
{
"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": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "n.*417A>G",
"hgvs_p": null,
"transcript": "ENST00000441832.1",
"protein_id": "ENSP00000398447.1",
"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": 2042,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000441832.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "n.*505A>G",
"hgvs_p": null,
"transcript": "ENST00000483328.5",
"protein_id": "ENSP00000420024.1",
"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": 4287,
"mane_select": null,
"mane_plus": null,
"biotype": "nonsense_mediated_decay",
"feature": "ENST00000483328.5"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.893A>G",
"hgvs_p": "p.Tyr298Cys",
"transcript": "ENST00000874895.1",
"protein_id": "ENSP00000544954.1",
"transcript_support_level": null,
"aa_start": 298,
"aa_end": null,
"aa_length": 316,
"cds_start": 893,
"cds_end": null,
"cds_length": 951,
"cdna_start": 917,
"cdna_end": null,
"cdna_length": 4048,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000874895.1"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.845A>G",
"hgvs_p": "p.Tyr282Cys",
"transcript": "ENST00000874896.1",
"protein_id": "ENSP00000544955.1",
"transcript_support_level": null,
"aa_start": 282,
"aa_end": null,
"aa_length": 300,
"cds_start": 845,
"cds_end": null,
"cds_length": 903,
"cdna_start": 859,
"cdna_end": null,
"cdna_length": 2646,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000874896.1"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.752A>G",
"hgvs_p": "p.Tyr251Cys",
"transcript": "ENST00000933515.1",
"protein_id": "ENSP00000603574.1",
"transcript_support_level": null,
"aa_start": 251,
"aa_end": null,
"aa_length": 269,
"cds_start": 752,
"cds_end": null,
"cds_length": 810,
"cdna_start": 979,
"cdna_end": null,
"cdna_length": 2203,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000933515.1"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.737A>G",
"hgvs_p": "p.Tyr246Cys",
"transcript": "ENST00000933516.1",
"protein_id": "ENSP00000603575.1",
"transcript_support_level": null,
"aa_start": 246,
"aa_end": null,
"aa_length": 264,
"cds_start": 737,
"cds_end": null,
"cds_length": 795,
"cdna_start": 757,
"cdna_end": null,
"cdna_length": 1097,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000933516.1"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.707A>G",
"hgvs_p": "p.Tyr236Cys",
"transcript": "ENST00000933513.1",
"protein_id": "ENSP00000603572.1",
"transcript_support_level": null,
"aa_start": 236,
"aa_end": null,
"aa_length": 254,
"cds_start": 707,
"cds_end": null,
"cds_length": 765,
"cdna_start": 746,
"cdna_end": null,
"cdna_length": 4956,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000933513.1"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 6,
"exon_rank_end": null,
"exon_count": 6,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.665A>G",
"hgvs_p": "p.Tyr222Cys",
"transcript": "ENST00000933519.1",
"protein_id": "ENSP00000603578.1",
"transcript_support_level": null,
"aa_start": 222,
"aa_end": null,
"aa_length": 240,
"cds_start": 665,
"cds_end": null,
"cds_length": 723,
"cdna_start": 673,
"cdna_end": null,
"cdna_length": 811,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000933519.1"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.620A>G",
"hgvs_p": "p.Tyr207Cys",
"transcript": "ENST00000933518.1",
"protein_id": "ENSP00000603577.1",
"transcript_support_level": null,
"aa_start": 207,
"aa_end": null,
"aa_length": 225,
"cds_start": 620,
"cds_end": null,
"cds_length": 678,
"cdna_start": 640,
"cdna_end": null,
"cdna_length": 891,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000933518.1"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.530A>G",
"hgvs_p": "p.Tyr177Cys",
"transcript": "ENST00000933514.1",
"protein_id": "ENSP00000603573.1",
"transcript_support_level": null,
"aa_start": 177,
"aa_end": null,
"aa_length": 195,
"cds_start": 530,
"cds_end": null,
"cds_length": 588,
"cdna_start": 586,
"cdna_end": null,
"cdna_length": 3259,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000933514.1"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 4,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.482A>G",
"hgvs_p": "p.Tyr161Cys",
"transcript": "ENST00000933517.1",
"protein_id": "ENSP00000603576.1",
"transcript_support_level": null,
"aa_start": 161,
"aa_end": null,
"aa_length": 179,
"cds_start": 482,
"cds_end": null,
"cds_length": 540,
"cdna_start": 505,
"cdna_end": null,
"cdna_length": 832,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000933517.1"
},
{
"aa_ref": "Y",
"aa_alt": "C",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.575A>G",
"hgvs_p": "p.Tyr192Cys",
"transcript": "XM_047443272.1",
"protein_id": "XP_047299228.1",
"transcript_support_level": null,
"aa_start": 192,
"aa_end": null,
"aa_length": 210,
"cds_start": 575,
"cds_end": null,
"cds_length": 633,
"cdna_start": 667,
"cdna_end": null,
"cdna_length": 4879,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047443272.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"3_prime_UTR_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "c.*178A>G",
"hgvs_p": null,
"transcript": "XM_047443271.1",
"protein_id": "XP_047299227.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 249,
"cds_start": null,
"cds_end": null,
"cds_length": 750,
"cdna_start": null,
"cdna_end": null,
"cdna_length": 5161,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "XM_047443271.1"
},
{
"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": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "n.765A>G",
"hgvs_p": null,
"transcript": "ENST00000452512.6",
"protein_id": null,
"transcript_support_level": 2,
"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": 2557,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000452512.6"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "n.892A>G",
"hgvs_p": null,
"transcript": "NR_004862.2",
"protein_id": null,
"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": 5104,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "NR_004862.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 5,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "n.640A>G",
"hgvs_p": null,
"transcript": "NR_109905.2",
"protein_id": null,
"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": 4852,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "NR_109905.2"
},
{
"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": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "n.804A>G",
"hgvs_p": null,
"transcript": "NR_109906.2",
"protein_id": null,
"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": 5016,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "NR_109906.2"
},
{
"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": 7,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"hgvs_c": "n.756A>G",
"hgvs_p": null,
"transcript": "NR_109907.2",
"protein_id": null,
"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": 4968,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "NR_109907.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 2,
"intron_rank": 1,
"intron_rank_end": null,
"gene_symbol": "C2orf69",
"gene_hgnc_id": 26799,
"hgvs_c": "n.466+21354T>C",
"hgvs_p": null,
"transcript": "ENST00000491721.1",
"protein_id": null,
"transcript_support_level": 2,
"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": 1034,
"mane_select": null,
"mane_plus": null,
"biotype": "pseudogene",
"feature": "ENST00000491721.1"
}
],
"gene_symbol": "TYW5",
"gene_hgnc_id": 26754,
"dbsnp": "rs763586010",
"frequency_reference_population": 0.0000043365562,
"hom_count_reference_population": 0,
"allele_count_reference_population": 7,
"gnomad_exomes_af": 0.00000410448,
"gnomad_genomes_af": 0.00000656314,
"gnomad_exomes_ac": 6,
"gnomad_genomes_ac": 1,
"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": 0,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.8909761905670166,
"computational_prediction_selected": "Pathogenic",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.883,
"revel_prediction": "Pathogenic",
"alphamissense_score": 0.6821,
"alphamissense_prediction": "Pathogenic",
"bayesdelnoaf_score": 0.35,
"bayesdelnoaf_prediction": "Pathogenic",
"phylop100way_score": 7.74,
"phylop100way_prediction": "Pathogenic",
"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": 4,
"acmg_classification": "Uncertain_significance",
"acmg_criteria": "PM2,PP3_Moderate",
"acmg_by_gene": [
{
"score": 4,
"benign_score": 0,
"pathogenic_score": 4,
"criteria": [
"PM2",
"PP3_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "NM_001039693.3",
"gene_symbol": "TYW5",
"hgnc_id": 26754,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.890A>G",
"hgvs_p": "p.Tyr297Cys"
},
{
"score": 4,
"benign_score": 0,
"pathogenic_score": 4,
"criteria": [
"PM2",
"PP3_Moderate"
],
"verdict": "Uncertain_significance",
"transcript": "ENST00000491721.1",
"gene_symbol": "C2orf69",
"hgnc_id": 26799,
"effects": [
"intron_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "n.466+21354T>C",
"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
}