GenTIGSA Gene Database on Rare Genetic Disorders

Variants in ClinVar from 539 of 916 Rare Genetic Disorders of GenTIGS

Nephronophthisis

An  Autosomal recessive  mode(s) within the Nephrological disorders  category

Conflicting classifications of pathogenicity 3
Pathogenic 5
Pathogenic/Likely pathogenic 4
Uncertain significance 3

Variant name Variant type GRCH38 location Germline classification Molecular consequence dbSNP_ID Submitter
NM_025114.4(CEP290):c.4805C>T (p.Thr1602Met) Single nucleotide variant Chr12:88083854 Conflicting classifications of pathogenicity Missense variant rs369451049 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
.Neuberg Centre For Genomic Medicine, NCGM
NM_025114.4(CEP290):c.5745dup (p.Lys1916Ter) Duplication Chr12:88071890 - 88071891 Pathogenic/Likely pathogenic Nonsense rs751361090 .Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
NM_025114.4(CEP290):c.5668G>T (p.Gly1890Ter) Single nucleotide variant Chr12:88077263 Pathogenic/Likely pathogenic Nonsense rs137852832 .Institute of Medical Genetics and Genomics, Sir Ganga Ram Hospital
.Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
.Neuberg Centre For Genomic Medicine, NCGM
.Suma Genomics
NM_016356.5(DCDC2):c.967G>C (p.Gly323Arg) Single nucleotide variant Chr6:24205058 Uncertain significance Missense variant rs146587418 .Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
NM_014425.5(INVS):c.796+5G>A Single nucleotide variant Chr9:100240245 Conflicting classifications of pathogenicity Intron variant rs1272619479 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_014425.5(INVS):c.1789C>T (p.Arg597Ter) Single nucleotide variant Chr9:100284324 Pathogenic/Likely pathogenic Nonsense|non-coding transcript variant rs755288504 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_014425.5(INVS):c.2719C>T (p.Arg907Ter) Single nucleotide variant Chr9:100292976 Pathogenic Nonsense|non-coding transcript variant rs267607185 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_001023570.4(IQCB1):c.1465C>T (p.Arg489Ter) Single nucleotide variant Chr3:121772659 Pathogenic Nonsense|non-coding transcript variant rs373909351 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_001128178.3(NPHP1):c.1084-1G>T Single nucleotide variant Chr2:110150257 Pathogenic Splice acceptor variant rs1458494785 .Genetics laboratory, Department of Obstetrics & Gynae, Institute of Kidney Diseases & Research Centre Dr. H.L. Trivedi Institute Of Transplantation Sciences
.Neuberg Centre For Genomic Medicine, NCGM
NM_014994.3(MAPKBP1):c.4375C>T (p.Arg1459Ter) Single nucleotide variant Chr15:41825284 Pathogenic Nonsense|non-coding transcript variant rs1057519304 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_001128178.3(NPHP1):c.1352+5G>A Single nucleotide variant Chr2:110146748 Uncertain significance Intron variant rs1681080526 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_015102.5(NPHP4):c.517C>T (p.Gln173Ter) Single nucleotide variant Chr1:5967299 Pathogenic 5 prime UTR variant|nonsense|non-coding transcript variant rs997408852 .Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
NM_153704.6(TMEM67):c.514C>T (p.Arg172Ter) Single nucleotide variant Chr8:93765413 Pathogenic/Likely pathogenic Nonsense|non-coding transcript variant rs765468645 .Institute of Medical Genetics and Genomics, Sir Ganga Ram Hospital
NM_153704.6(TMEM67):c.2086C>T (p.Leu696Phe) Single nucleotide variant Chr8:93797456 Conflicting classifications of pathogenicity Missense variant|non-coding transcript variant rs863225238 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_001379286.1(ZNF423):c.848C>T (p.Thr283Met) Single nucleotide variant Chr16:49638328 Uncertain significance Missense variant rs553506281 .Genetics laboratory, Department of Obstetrics & Gynae, Institute of Kidney Diseases & Research Centre Dr. H.L. Trivedi Institute Of Transplantation Sciences
.Neuberg Centre For Genomic Medicine, NCGM

Indian Institutes & Variant Submission Overview
Chromosome-wise Variant Distribution