GenTIGSA Gene Database on Rare Genetic Disorders

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

Mucolipidosis type II

An  Autosomal recessive  mode(s) within the Metabolic disorders/Lysosomal storage disorders  category

Conflicting classifications of pathogenicity 3
Likely pathogenic 15
Pathogenic 4
Pathogenic/Likely pathogenic 3
Uncertain significance 1

Variant name Variant type GRCH38 location Germline classification Molecular consequence dbSNP_ID Submitter
NM_024312.5(GNPTAB):c.249_267dup (p.Leu90delinsTrpHisArgSerTer) Duplication Chr12:101789993 - 101789994 Pathogenic Nonsense rs2547972361 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_024312.5(GNPTAB):c.1134C>G (p.Ser378Arg) Single nucleotide variant Chr12:101770171 Uncertain significance Missense variant rs2137123702 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_024312.5(GNPTAB):c.1091G>C (p.Arg364Pro) Single nucleotide variant Chr12:101770428 Conflicting classifications of pathogenicity Missense variant rs200784803 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_024312.5(GNPTAB):c.3539C>T (p.Ser1180Phe) Single nucleotide variant Chr12:101753435 Likely pathogenic Missense variant rs1060499689 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.3575T>C (p.Phe1192Ser) Single nucleotide variant Chr12:101753399 Likely pathogenic Missense variant rs1060499688 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.3336-1G>A Single nucleotide variant Chr12:101757311 Likely pathogenic Splice acceptor variant rs397507562 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.3250-10_3335+112dup Duplication Chr12:101757459 - 101757460 Likely pathogenic Splice acceptor variant|splice donor variant rs1555268712 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.3250-1_3250delinsAT Indel Chr12:101757657 - 101757658 Likely pathogenic Splice acceptor variant rs1060499687 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.2947_2954dup (p.Arg986fs) Duplication Chr12:101761307 - 101761308 Likely pathogenic Frameshift variant rs1555269154 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.2956C>T (p.Arg986Cys) Single nucleotide variant Chr12:101761306 Pathogenic/Likely pathogenic Missense variant rs769587233 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
.Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
NM_024312.5(GNPTAB):c.2369_2370del (p.Phe790fs) Deletion Chr12:101764547 - 101764548 Likely pathogenic Frameshift variant rs1060499685 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.3449del (p.Leu1150fs) Deletion Chr12:101753525 Likely pathogenic Frameshift variant rs1060499684 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.1613-25del Deletion Chr12:101765329 Conflicting classifications of pathogenicity Intron variant rs546802775 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.2675dup (p.Leu892fs) Duplication Chr12:101764241 - 101764242 Likely pathogenic Frameshift variant rs1555269488 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.2550_2554dup (p.Ile852fs) Microsatellite Chr12:101764362 - 101764363 Likely pathogenic Frameshift variant rs281864996 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.2614del (p.Val872fs) Deletion Chr12:101764303 Likely pathogenic Frameshift variant rs1060499681 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.1600G>A (p.Asp534Asn) Single nucleotide variant Chr12:101766103 Likely pathogenic Missense variant rs750240374 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.1408+1G>T Single nucleotide variant Chr12:101768036 Pathogenic/Likely pathogenic Splice donor variant rs1060499680 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
.Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
NM_024312.5(GNPTAB):c.1021_1023del (p.Pro341del) Deletion Chr12:101770496 - 101770498 Likely pathogenic Inframe_deletion rs1060499679 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.378dup (p.Glu127fs) Duplication Chr12:101786204 - 101786205 Likely pathogenic Frameshift variant rs1555271865 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.571G>A (p.Val191Ile) Single nucleotide variant Chr12:101786012 Likely pathogenic Missense variant rs751953529 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.1144A>C (p.Thr382Pro) Single nucleotide variant Chr12:101770161 Conflicting classifications of pathogenicity Missense variant rs112543062 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
NM_024312.5(GNPTAB):c.441del (p.Asn148fs) Deletion Chr12:101786142 Pathogenic Frameshift variant rs281864955 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_024312.5(GNPTAB):c.2550_2554del (p.Lys850fs) Microsatellite Chr12:101764363 - 101764367 Pathogenic/Likely pathogenic Frameshift variant rs281864996 .Diagnostics Division, CENTRE FOR DNA FINGERPRINTING AND DIAGNOSTICS
.Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
.Neuberg Centre For Genomic Medicine, NCGM
NM_024312.5(GNPTAB):c.3613C>T (p.Arg1205Ter) Single nucleotide variant Chr12:101749181 Pathogenic Nonsense rs35333334 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
.Neuberg Centre For Genomic Medicine, NCGM
NM_024312.5(GNPTAB):c.1196C>T (p.Ser399Phe) Single nucleotide variant Chr12:101770109 Pathogenic Missense variant rs281865026 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
.Lifecell International Pvt. Ltd

Indian Institutes & Variant Submission Overview
Chromosome-wise Variant Distribution