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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: 3-9839107-C-G (hg38)
Bash / cURL Example
bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=3&pos=9839107&ref=C&alt=G&genome=hg38&allGenes=true"API Response
json
{
"variants": [
{
"chr": "3",
"pos": 9839107,
"ref": "C",
"alt": "G",
"effect": "missense_variant",
"transcript": "NM_173659.5",
"consequences": [
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.765G>C",
"hgvs_p": "p.Met255Ile",
"transcript": "NM_173659.5",
"protein_id": "NP_775930.3",
"transcript_support_level": null,
"aa_start": 255,
"aa_end": null,
"aa_length": 343,
"cds_start": 765,
"cds_end": null,
"cds_length": 1032,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "ENST00000383820.10",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_173659.5"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": true,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.765G>C",
"hgvs_p": "p.Met255Ile",
"transcript": "ENST00000383820.10",
"protein_id": "ENSP00000373331.6",
"transcript_support_level": 1,
"aa_start": 255,
"aa_end": null,
"aa_length": 343,
"cds_start": 765,
"cds_end": null,
"cds_length": 1032,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": "NM_173659.5",
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000383820.10"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.720G>C",
"hgvs_p": "p.Met240Ile",
"transcript": "ENST00000433535.7",
"protein_id": "ENSP00000398921.3",
"transcript_support_level": 1,
"aa_start": 240,
"aa_end": null,
"aa_length": 328,
"cds_start": 720,
"cds_end": null,
"cds_length": 987,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000433535.7"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 9,
"exon_rank_end": null,
"exon_count": 10,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.891G>C",
"hgvs_p": "p.Met297Ile",
"transcript": "ENST00000923702.1",
"protein_id": "ENSP00000593761.1",
"transcript_support_level": null,
"aa_start": 297,
"aa_end": null,
"aa_length": 385,
"cds_start": 891,
"cds_end": null,
"cds_length": 1158,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923702.1"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.801G>C",
"hgvs_p": "p.Met267Ile",
"transcript": "ENST00000954644.1",
"protein_id": "ENSP00000624703.1",
"transcript_support_level": null,
"aa_start": 267,
"aa_end": null,
"aa_length": 355,
"cds_start": 801,
"cds_end": null,
"cds_length": 1068,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000954644.1"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.765G>C",
"hgvs_p": "p.Met255Ile",
"transcript": "ENST00000923701.1",
"protein_id": "ENSP00000593760.1",
"transcript_support_level": null,
"aa_start": 255,
"aa_end": null,
"aa_length": 343,
"cds_start": 765,
"cds_end": null,
"cds_length": 1032,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923701.1"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.759G>C",
"hgvs_p": "p.Met253Ile",
"transcript": "ENST00000870303.1",
"protein_id": "ENSP00000540362.1",
"transcript_support_level": null,
"aa_start": 253,
"aa_end": null,
"aa_length": 341,
"cds_start": 759,
"cds_end": null,
"cds_length": 1026,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000870303.1"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.756G>C",
"hgvs_p": "p.Met252Ile",
"transcript": "ENST00000923703.1",
"protein_id": "ENSP00000593762.1",
"transcript_support_level": null,
"aa_start": 252,
"aa_end": null,
"aa_length": 340,
"cds_start": 756,
"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": "ENST00000923703.1"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.735G>C",
"hgvs_p": "p.Met245Ile",
"transcript": "ENST00000954645.1",
"protein_id": "ENSP00000624704.1",
"transcript_support_level": null,
"aa_start": 245,
"aa_end": null,
"aa_length": 333,
"cds_start": 735,
"cds_end": null,
"cds_length": 1002,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000954645.1"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.720G>C",
"hgvs_p": "p.Met240Ile",
"transcript": "NM_001142547.3",
"protein_id": "NP_001136019.2",
"transcript_support_level": null,
"aa_start": 240,
"aa_end": null,
"aa_length": 328,
"cds_start": 720,
"cds_end": null,
"cds_length": 987,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001142547.3"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 7,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.657G>C",
"hgvs_p": "p.Met219Ile",
"transcript": "ENST00000870304.1",
"protein_id": "ENSP00000540363.1",
"transcript_support_level": null,
"aa_start": 219,
"aa_end": null,
"aa_length": 307,
"cds_start": 657,
"cds_end": null,
"cds_length": 924,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000870304.1"
},
{
"aa_ref": "V",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.793G>C",
"hgvs_p": "p.Val265Leu",
"transcript": "NM_001351738.2",
"protein_id": "NP_001338667.2",
"transcript_support_level": null,
"aa_start": 265,
"aa_end": null,
"aa_length": 281,
"cds_start": 793,
"cds_end": null,
"cds_length": 846,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001351738.2"
},
{
"aa_ref": "V",
"aa_alt": "L",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 8,
"exon_rank_end": null,
"exon_count": 9,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.787G>C",
"hgvs_p": "p.Val263Leu",
"transcript": "ENST00000427174.5",
"protein_id": "ENSP00000400397.1",
"transcript_support_level": 5,
"aa_start": 263,
"aa_end": null,
"aa_length": 279,
"cds_start": 787,
"cds_end": null,
"cds_length": 840,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000427174.5"
},
{
"aa_ref": "M",
"aa_alt": "I",
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"missense_variant"
],
"exon_rank": 3,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.273G>C",
"hgvs_p": "p.Met91Ile",
"transcript": "ENST00000423108.5",
"protein_id": "ENSP00000405054.1",
"transcript_support_level": 2,
"aa_start": 91,
"aa_end": null,
"aa_length": 143,
"cds_start": 273,
"cds_end": null,
"cds_length": 432,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000423108.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": true,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 5,
"intron_rank": 4,
"intron_rank_end": null,
"gene_symbol": "TTLL3",
"gene_hgnc_id": 24483,
"hgvs_c": "c.918+9712C>G",
"hgvs_p": null,
"transcript": "ENST00000455274.5",
"protein_id": "ENSP00000409632.1",
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": 326,
"cds_start": null,
"cds_end": null,
"cds_length": 981,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000455274.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 7,
"intron_rank": 6,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.577-900G>C",
"hgvs_p": null,
"transcript": "ENST00000923705.1",
"protein_id": "ENSP00000593764.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 255,
"cds_start": null,
"cds_end": null,
"cds_length": 768,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923705.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": 7,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.701-900G>C",
"hgvs_p": null,
"transcript": "NM_001351737.2",
"protein_id": "NP_001338666.2",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 236,
"cds_start": null,
"cds_end": null,
"cds_length": 711,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001351737.2"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": 7,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.629-900G>C",
"hgvs_p": null,
"transcript": "NM_001351736.3",
"protein_id": "NP_001338665.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 212,
"cds_start": null,
"cds_end": null,
"cds_length": 639,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "NM_001351736.3"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 8,
"intron_rank": 7,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.629-900G>C",
"hgvs_p": null,
"transcript": "ENST00000424438.5",
"protein_id": "ENSP00000408693.1",
"transcript_support_level": 2,
"aa_start": null,
"aa_end": null,
"aa_length": 212,
"cds_start": null,
"cds_end": null,
"cds_length": 639,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000424438.5"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 4,
"intron_rank": 3,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.247-900G>C",
"hgvs_p": null,
"transcript": "ENST00000923704.1",
"protein_id": "ENSP00000593763.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 145,
"cds_start": null,
"cds_end": null,
"cds_length": 438,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923704.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": true,
"strand": false,
"consequences": [
"intron_variant"
],
"exon_rank": null,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": 2,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "c.202-900G>C",
"hgvs_p": null,
"transcript": "ENST00000923706.1",
"protein_id": "ENSP00000593765.1",
"transcript_support_level": null,
"aa_start": null,
"aa_end": null,
"aa_length": 130,
"cds_start": null,
"cds_end": null,
"cds_length": 393,
"cdna_start": null,
"cdna_end": null,
"cdna_length": null,
"mane_select": null,
"mane_plus": null,
"biotype": "protein_coding",
"feature": "ENST00000923706.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
"exon_rank": 2,
"exon_rank_end": null,
"exon_count": 3,
"intron_rank": null,
"intron_rank_end": null,
"gene_symbol": "RPUSD3",
"gene_hgnc_id": 28437,
"hgvs_c": "n.748G>C",
"hgvs_p": null,
"transcript": "ENST00000464783.1",
"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": null,
"mane_select": null,
"mane_plus": null,
"biotype": "retained_intron",
"feature": "ENST00000464783.1"
},
{
"aa_ref": null,
"aa_alt": null,
"canonical": false,
"protein_coding": false,
"strand": false,
"consequences": [
"non_coding_transcript_exon_variant"
],
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"exon_count": 2,
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"gene_symbol": "RPUSD3",
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"transcript": "ENST00000466141.1",
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"aa_length": null,
"cds_start": null,
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"cds_length": null,
"cdna_start": null,
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"cdna_length": null,
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"biotype": "retained_intron",
"feature": "ENST00000466141.1"
}
],
"gene_symbol": "RPUSD3",
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"dbsnp": "rs921232881",
"frequency_reference_population": 6.8405535e-7,
"hom_count_reference_population": 0,
"allele_count_reference_population": 1,
"gnomad_exomes_af": 6.84055e-7,
"gnomad_genomes_af": null,
"gnomad_exomes_ac": 1,
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"gnomad_exomes_homalt": 0,
"gnomad_genomes_homalt": null,
"gnomad_mito_homoplasmic": null,
"gnomad_mito_heteroplasmic": null,
"computational_score_selected": 0.032598644495010376,
"computational_prediction_selected": "Benign",
"computational_source_selected": "MetaRNN",
"splice_score_selected": 0.009999999776482582,
"splice_prediction_selected": "Benign",
"splice_source_selected": "max_spliceai",
"revel_score": 0.022,
"revel_prediction": "Benign",
"alphamissense_score": 0.1243,
"alphamissense_prediction": null,
"bayesdelnoaf_score": -0.63,
"bayesdelnoaf_prediction": "Benign",
"phylop100way_score": -0.677,
"phylop100way_prediction": "Benign",
"spliceai_max_score": 0.01,
"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": -2,
"acmg_classification": "Likely_benign",
"acmg_criteria": "PM2,BP4_Strong",
"acmg_by_gene": [
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "NM_173659.5",
"gene_symbol": "RPUSD3",
"hgnc_id": 28437,
"effects": [
"missense_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.765G>C",
"hgvs_p": "p.Met255Ile"
},
{
"score": -2,
"benign_score": 4,
"pathogenic_score": 2,
"criteria": [
"PM2",
"BP4_Strong"
],
"verdict": "Likely_benign",
"transcript": "ENST00000455274.5",
"gene_symbol": "TTLL3",
"hgnc_id": 24483,
"effects": [
"intron_variant"
],
"inheritance_mode": "AR",
"hgvs_c": "c.918+9712C>G",
"hgvs_p": null
}
],
"clinvar_disease": "",
"clinvar_classification": "",
"clinvar_review_status": "",
"clinvar_submissions_summary": "",
"phenotype_combined": null,
"pathogenicity_classification_combined": null,
"custom_annotations": null
}
],
"message": null
}