[{"start":6524705,"input":"1 6524705 6524705 C/T 1","id":"1_6524705_C/T","assembly_name":"GRCh37","most_severe_consequence":"missense_variant","allele_string":"C/T","end":6524705,"colocated_variants":[{"var_synonyms":{"COSMIC":["COSM33490"]},"id":"COSV61067657","somatic":1,"strand":1,"allele_string":"COSMIC_MUTATION","seq_region_name":"1","phenotype_or_disease":1,"start":6524705,"end":6524705}],"transcript_consequences":[{"gene_symbol":"PLEKHG5","distance":1447,"impact":"MODIFIER","variant_allele":"T","transcript_id":"ENST00000340850","biotype":"protein_coding","strand":-1,"hgnc_id":29105,"consequence_terms":["downstream_gene_variant"],"gene_symbol_source":"HGNC","gene_id":"ENSG00000171680"},{"gene_symbol":"TNFRSF25","cdna_end":235,"polyphen_score":0.621,"protein_end":79,"sift_score":0.14,"variant_allele":"T","amino_acids":"E/K","transcript_id":"ENST00000348333","cds_start":235,"hgnc_id":11910,"codons":"Gag/Aag","gene_symbol_source":"HGNC","protein_start":79,"cds_end":235,"sift_prediction":"tolerated","impact":"MODERATE","cdna_start":235,"polyphen_prediction":"possibly_damaging","biotype":"protein_coding","strand":-1,"gene_id":"ENSG00000215788","consequence_terms":["missense_variant"]},{"gene_symbol":"TNFRSF25","impact":"MODIFIER","variant_allele":"T","transcript_id":"ENST00000351748","biotype":"protein_coding","strand":-1,"hgnc_id":11910,"gene_symbol_source":"HGNC","gene_id":"ENSG00000215788","consequence_terms":["intron_variant"]},{"consequence_terms":["missense_variant"],"gene_id":"ENSG00000215788","strand":-1,"biotype":"protein_coding","polyphen_prediction":"benign","cdna_start":438,"impact":"MODERATE","sift_prediction":"tolerated","protein_start":124,"cds_end":370,"codons":"Gag/Aag","gene_symbol_source":"HGNC","hgnc_id":11910,"cds_start":370,"transcript_id":"ENST00000351959","amino_acids":"E/K","variant_allele":"T","sift_score":0.07,"polyphen_score":0.204,"cdna_end":438,"protein_end":124,"gene_symbol":"TNFRSF25"},{"cds_start":370,"transcript_id":"ENST00000356876","amino_acids":"E/K","protein_start":124,"cds_end":370,"gene_symbol_source":"HGNC","codons":"Gag/Aag","hgnc_id":11910,"gene_symbol":"TNFRSF25","sift_score":0.06,"variant_allele":"T","polyphen_score":0.498,"protein_end":124,"cdna_end":458,"biotype":"protein_coding","polyphen_prediction":"possibly_damaging","gene_id":"ENSG00000215788","consequence_terms":["missense_variant"],"strand":-1,"sift_prediction":"tolerated","cdna_start":458,"impact":"MODERATE"},{"variant_allele":"T","impact":"MODIFIER","gene_symbol":"PLEKHG5","distance":2477,"strand":-1,"hgnc_id":29105,"consequence_terms":["downstream_gene_variant"],"gene_symbol_source":"HGNC","gene_id":"ENSG00000171680","transcript_id":"ENST00000377725","biotype":"protein_coding"},{"distance":2477,"gene_symbol":"PLEKHG5","impact":"MODIFIER","variant_allele":"T","biotype":"protein_coding","transcript_id":"ENST00000377728","gene_id":"ENSG00000171680","gene_symbol_source":"HGNC","consequence_terms":["downstream_gene_variant"],"hgnc_id":29105,"strand":-1},{"gene_symbol":"PLEKHG5","distance":2477,"variant_allele":"T","impact":"MODIFIER","biotype":"protein_coding","transcript_id":"ENST00000377732","gene_symbol_source":"HGNC","consequence_terms":["downstream_gene_variant"],"gene_id":"ENSG00000171680","strand":-1,"hgnc_id":29105},{"impact":"MODIFIER","variant_allele":"T","distance":2478,"gene_symbol":"PLEKHG5","strand":-1,"hgnc_id":29105,"gene_id":"ENSG00000171680","consequence_terms":["downstream_gene_variant"],"gene_symbol_source":"HGNC","transcript_id":"ENST00000377737","biotype":"protein_coding"},{"gene_symbol_source":"HGNC","consequence_terms":["downstream_gene_variant"],"gene_id":"ENSG00000171680","strand":-1,"hgnc_id":29105,"biotype":"protein_coding","transcript_id":"ENST00000377740","impact":"MODIFIER","variant_allele":"T","distance":2477,"gene_symbol":"PLEKHG5"},{"gene_symbol_source":"HGNC","consequence_terms":["downstream_gene_variant"],"gene_id":"ENSG00000171680","strand":-1,"hgnc_id":29105,"biotype":"protein_coding","transcript_id":"ENST00000377748","impact":"MODIFIER","variant_allele":"T","distance":1447,"gene_symbol":"PLEKHG5"},{"cdna_start":438,"impact":"MODERATE","sift_prediction":"deleterious","gene_id":"ENSG00000215788","consequence_terms":["missense_variant"],"strand":-1,"biotype":"protein_coding","polyphen_prediction":"probably_damaging","variant_allele":"T","sift_score":0.04,"polyphen_score":0.928,"cdna_end":438,"protein_end":124,"gene_symbol":"TNFRSF25","cds_end":370,"protein_start":124,"codons":"Gag/Aag","gene_symbol_source":"HGNC","hgnc_id":11910,"cds_start":370,"transcript_id":"ENST00000377782","amino_acids":"E/K"},{"impact":"MODIFIER","variant_allele":"T","gene_symbol":"ESPN","distance":3701,"strand":1,"hgnc_id":13281,"gene_symbol_source":"HGNC","gene_id":"ENSG00000187017","consequence_terms":["downstream_gene_variant"],"transcript_id":"ENST00000377828","biotype":"protein_coding"},{"biotype":"protein_coding","transcript_id":"ENST00000400913","consequence_terms":["downstream_gene_variant"],"gene_symbol_source":"HGNC","gene_id":"ENSG00000171680","hgnc_id":29105,"strand":-1,"distance":1447,"gene_symbol":"PLEKHG5","impact":"MODIFIER","variant_allele":"T"},{"gene_symbol":"PLEKHG5","distance":2477,"impact":"MODIFIER","variant_allele":"T","transcript_id":"ENST00000400915","biotype":"protein_coding","strand":-1,"hgnc_id":29105,"gene_id":"ENSG00000171680","consequence_terms":["downstream_gene_variant"],"gene_symbol_source":"HGNC"},{"biotype":"nonsense_mediated_decay","polyphen_prediction":"possibly_damaging","gene_id":"ENSG00000215788","consequence_terms":["missense_variant","NMD_transcript_variant"],"strand":-1,"sift_prediction":"tolerated","impact":"MODERATE","cdna_start":370,"amino_acids":"E/K","cds_start":370,"transcript_id":"ENST00000414040","codons":"Gag/Aag","gene_symbol_source":"HGNC","hgnc_id":11910,"cds_end":370,"protein_start":124,"gene_symbol":"TNFRSF25","sift_score":0.08,"variant_allele":"T","polyphen_score":0.88,"protein_end":124,"cdna_end":370},{"variant_allele":"T","impact":"MODIFIER","gene_symbol":"ESPN","distance":3701,"strand":1,"hgnc_id":13281,"gene_symbol_source":"HGNC","consequence_terms":["downstream_gene_variant"],"gene_id":"ENSG00000187017","transcript_id":"ENST00000416731","biotype":"protein_coding"},{"flags":["cds_start_NF"],"biotype":"protein_coding","transcript_id":"ENST00000434576","gene_symbol_source":"HGNC","gene_id":"ENSG00000187017","consequence_terms":["downstream_gene_variant"],"hgnc_id":13281,"strand":1,"distance":3275,"gene_symbol":"ESPN","variant_allele":"T","impact":"MODIFIER"},{"distance":1298,"gene_symbol":"TNFRSF25","impact":"MODIFIER","variant_allele":"T","biotype":"retained_intron","transcript_id":"ENST00000453260","gene_symbol_source":"HGNC","consequence_terms":["upstream_gene_variant"],"gene_id":"ENSG00000215788","hgnc_id":11910,"strand":-1},{"biotype":"retained_intron","transcript_id":"ENST00000453341","gene_symbol_source":"HGNC","consequence_terms":["non_coding_transcript_exon_variant"],"gene_id":"ENSG00000215788","strand":-1,"hgnc_id":11910,"gene_symbol":"TNFRSF25","variant_allele":"T","cdna_start":362,"cdna_end":362,"impact":"MODIFIER"},{"cdna_start":370,"cdna_end":370,"variant_allele":"T","impact":"MODIFIER","gene_symbol":"TNFRSF25","strand":-1,"hgnc_id":11910,"gene_id":"ENSG00000215788","gene_symbol_source":"HGNC","consequence_terms":["non_coding_transcript_exon_variant"],"transcript_id":"ENST00000461703","biotype":"processed_transcript"},{"biotype":"protein_coding","transcript_id":"ENST00000461727","gene_symbol_source":"HGNC","gene_id":"ENSG00000187017","consequence_terms":["downstream_gene_variant"],"hgnc_id":13281,"strand":1,"gene_symbol":"ESPN","distance":3716,"variant_allele":"T","impact":"MODIFIER"},{"biotype":"processed_transcript","transcript_id":"ENST00000468561","gene_symbol_source":"HGNC","consequence_terms":["downstream_gene_variant"],"gene_id":"ENSG00000187017","hgnc_id":13281,"strand":1,"distance":3275,"gene_symbol":"ESPN","variant_allele":"T","impact":"MODIFIER"},{"gene_symbol":"TNFRSF25","variant_allele":"T","cdna_end":260,"cdna_start":260,"impact":"MODIFIER","biotype":"retained_intron","transcript_id":"ENST00000469691","gene_symbol_source":"HGNC","gene_id":"ENSG00000215788","consequence_terms":["non_coding_transcript_exon_variant"],"strand":-1,"hgnc_id":11910},{"gene_symbol":"TNFRSF25","distance":1023,"variant_allele":"T","impact":"MODIFIER","transcript_id":"ENST00000473343","biotype":"retained_intron","hgnc_id":11910,"strand":-1,"gene_symbol_source":"HGNC","consequence_terms":["upstream_gene_variant"],"gene_id":"ENSG00000215788"},{"transcript_id":"ENST00000475228","biotype":"processed_transcript","strand":1,"hgnc_id":13281,"gene_id":"ENSG00000187017","consequence_terms":["downstream_gene_variant"],"gene_symbol_source":"HGNC","gene_symbol":"ESPN","distance":4593,"impact":"MODIFIER","variant_allele":"T"},{"biotype":"processed_transcript","transcript_id":"ENST00000475730","gene_symbol_source":"HGNC","consequence_terms":["upstream_gene_variant"],"gene_id":"ENSG00000215788","hgnc_id":11910,"strand":-1,"gene_symbol":"TNFRSF25","distance":2038,"impact":"MODIFIER","variant_allele":"T"},{"strand":1,"hgnc_id":13281,"consequence_terms":["downstream_gene_variant"],"gene_symbol_source":"HGNC","gene_id":"ENSG00000187017","transcript_id":"ENST00000477679","biotype":"retained_intron","variant_allele":"T","impact":"MODIFIER","gene_symbol":"ESPN","distance":4234},{"variant_allele":"T","sift_score":0.19,"polyphen_score":0.996,"protein_end":124,"cdna_end":438,"gene_symbol":"TNFRSF25","cds_end":370,"protein_start":124,"gene_symbol_source":"HGNC","codons":"Gag/Aag","hgnc_id":11910,"cds_start":370,"transcript_id":"ENST00000480393","amino_acids":"E/K","cdna_start":438,"impact":"MODERATE","sift_prediction":"tolerated","gene_id":"ENSG00000215788","consequence_terms":["missense_variant","NMD_transcript_variant"],"strand":-1,"biotype":"nonsense_mediated_decay","polyphen_prediction":"probably_damaging"},{"transcript_id":"ENST00000481401","biotype":"protein_coding","flags":["cds_end_NF"],"hgnc_id":11910,"strand":-1,"gene_symbol_source":"HGNC","consequence_terms":["5_prime_UTR_variant"],"gene_id":"ENSG00000215788","gene_symbol":"TNFRSF25","impact":"MODIFIER","cdna_end":401,"cdna_start":401,"variant_allele":"T"},{"gene_symbol":"TNFRSF25","variant_allele":"T","sift_score":0.03,"polyphen_score":0.91,"cdna_end":438,"protein_end":124,"amino_acids":"E/K","cds_start":370,"transcript_id":"ENST00000485036","codons":"Gag/Aag","gene_symbol_source":"HGNC","hgnc_id":11910,"cds_end":370,"protein_start":124,"sift_prediction":"deleterious","impact":"MODERATE","cdna_start":438,"biotype":"nonsense_mediated_decay","polyphen_prediction":"probably_damaging","gene_id":"ENSG00000215788","consequence_terms":["missense_variant","NMD_transcript_variant"],"strand":-1},{"gene_symbol_source":"HGNC","gene_id":"ENSG00000171680","consequence_terms":["downstream_gene_variant"],"hgnc_id":29105,"strand":-1,"biotype":"retained_intron","transcript_id":"ENST00000487949","impact":"MODIFIER","variant_allele":"T","distance":2477,"gene_symbol":"PLEKHG5"},{"distance":1447,"gene_symbol":"PLEKHG5","impact":"MODIFIER","variant_allele":"T","transcript_id":"ENST00000489097","biotype":"retained_intron","strand":-1,"hgnc_id":29105,"gene_id":"ENSG00000171680","consequence_terms":["downstream_gene_variant"],"gene_symbol_source":"HGNC"},{"gene_symbol":"TNFRSF25","polyphen_score":0.526,"protein_end":79,"cdna_end":235,"variant_allele":"T","sift_score":0.04,"transcript_id":"ENST00000502588","cds_start":235,"amino_acids":"E/K","protein_start":79,"cds_end":235,"hgnc_id":11910,"gene_symbol_source":"HGNC","codons":"Gag/Aag","sift_prediction":"deleterious","cdna_start":235,"impact":"MODERATE","polyphen_prediction":"possibly_damaging","biotype":"nonsense_mediated_decay","strand":-1,"consequence_terms":["missense_variant","NMD_transcript_variant"],"gene_id":"ENSG00000215788"},{"sift_prediction":"deleterious","impact":"MODERATE","cdna_start":235,"biotype":"nonsense_mediated_decay","polyphen_prediction":"possibly_damaging","consequence_terms":["missense_variant","NMD_transcript_variant"],"gene_id":"ENSG00000215788","strand":-1,"gene_symbol":"TNFRSF25","variant_allele":"T","sift_score":0.03,"polyphen_score":0.526,"protein_end":79,"cdna_end":235,"amino_acids":"E/K","cds_start":235,"transcript_id":"ENST00000502730","codons":"Gag/Aag","gene_symbol_source":"HGNC","hgnc_id":11910,"cds_end":235,"protein_start":79},{"sift_score":0.04,"variant_allele":"T","cdna_end":370,"polyphen_score":0.498,"protein_end":124,"gene_symbol":"TNFRSF25","gene_symbol_source":"HGNC","codons":"Gag/Aag","hgnc_id":11910,"cds_end":370,"protein_start":124,"amino_acids":"E/K","cds_start":370,"transcript_id":"ENST00000510563","impact":"MODERATE","cdna_start":370,"sift_prediction":"deleterious","gene_id":"ENSG00000215788","consequence_terms":["missense_variant","NMD_transcript_variant"],"strand":-1,"biotype":"nonsense_mediated_decay","polyphen_prediction":"possibly_damaging"},{"gene_symbol":"TNFRSF25","impact":"MODIFIER","cdna_end":870,"cdna_start":870,"variant_allele":"T","transcript_id":"ENST00000513135","biotype":"retained_intron","strand":-1,"hgnc_id":11910,"gene_id":"ENSG00000215788","consequence_terms":["non_coding_transcript_exon_variant"],"gene_symbol_source":"HGNC"},{"gene_symbol":"TNFRSF25","variant_allele":"T","cdna_end":494,"cdna_start":494,"impact":"MODIFIER","biotype":"retained_intron","transcript_id":"ENST00000515145","gene_id":"ENSG00000215788","gene_symbol_source":"HGNC","consequence_terms":["non_coding_transcript_exon_variant"],"hgnc_id":11910,"strand":-1},{"transcript_id":"ENST00000535355","biotype":"protein_coding","strand":-1,"hgnc_id":29105,"gene_id":"ENSG00000171680","gene_symbol_source":"HGNC","consequence_terms":["downstream_gene_variant"],"distance":2478,"gene_symbol":"PLEKHG5","variant_allele":"T","impact":"MODIFIER"},{"variant_allele":"T","impact":"MODIFIER","gene_symbol":"PLEKHG5","distance":2860,"strand":-1,"hgnc_id":29105,"gene_symbol_source":"HGNC","gene_id":"ENSG00000171680","consequence_terms":["downstream_gene_variant"],"transcript_id":"ENST00000537245","biotype":"protein_coding"},{"transcript_id":"ENST00000544978","biotype":"protein_coding","strand":-1,"hgnc_id":29105,"gene_symbol_source":"HGNC","consequence_terms":["downstream_gene_variant"],"gene_id":"ENSG00000171680","distance":3198,"gene_symbol":"PLEKHG5","variant_allele":"T","impact":"MODIFIER"}],"seq_region_name":"1","strand":1}]