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