Gene Gene information from NCBI Gene database.
Entrez ID 79158
Gene name N-acetylglucosamine-1-phosphate transferase subunits alpha and beta
Gene symbol GNPTAB
Synonyms (NCBI Gene)
GNPTAICD
Chromosome 12
Chromosome location 12q23.2
Summary This gene encodes two of three subunit types of the membrane-bound enzyme N-acetylglucosamine-1-phosphotransferase, a heterohexameric complex composed of two alpha, two beta, and two gamma subunits. The encoded protein is proteolytically cleaved at the Ly
SNPs SNP information provided by dbSNP.
167
SNP ID Visualize variation Clinical significance Consequence
rs34002892 GA>- Pathogenic Genic downstream transcript variant, coding sequence variant, frameshift variant
rs34159654 T>G Likely-pathogenic, pathogenic Missense variant, genic upstream transcript variant, 5 prime UTR variant, coding sequence variant
rs34161232 A>TTT Pathogenic Frameshift variant, coding sequence variant
rs34256381 ->TAGG Pathogenic Frameshift variant, coding sequence variant
rs34517004 T>- Pathogenic Frameshift variant, 5 prime UTR variant, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
749
miRTarBase ID miRNA Experiments Reference
MIRT027553 hsa-miR-98-5p Microarray 19088304
MIRT040448 hsa-miR-615-3p CLASH 23622248
MIRT557603 hsa-miR-548c-3p PAR-CLIP 21572407
MIRT557602 hsa-miR-5582-3p PAR-CLIP 21572407
MIRT557601 hsa-miR-548az-5p PAR-CLIP 21572407
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
26
GO ID Ontology Definition Evidence Reference
GO:0000139 Component Golgi membrane IDA 23733939, 24375680
GO:0000139 Component Golgi membrane IEA
GO:0003976 Function UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity IBA
GO:0003976 Function UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity IDA 19955174, 23733939, 25788519
GO:0003976 Function UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
607840 29670 ENSG00000111670
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q3T906
Protein name N-acetylglucosamine-1-phosphotransferase subunits alpha/beta (EC 2.7.8.17) (GlcNAc-1-phosphotransferase subunits alpha/beta) (Stealth protein GNPTAB) (UDP-N-acetylglucosamine-1-phosphotransferase subunits alpha/beta) [Cleaved into: N-acetylglucosamine-1-p
Protein function Catalyzes the formation of mannose 6-phosphate (M6P) markers on high mannose type oligosaccharides in the Golgi apparatus. M6P residues are required to bind to the M6P receptors (MPR), which mediate the vesicular transport of lysosomal enzymes t
PDB 2N6D , 7S05 , 7S06 , 9BGF , 9BGG
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF17101 Stealth_CR1 73 101 Stealth protein CR1, conserved region 1 Family
PF18440 GlcNAc-1_reg 218 305 Putative GlcNAc-1 phosphotransferase regulatory domain Domain
PF11380 Stealth_CR2 322 429 Stealth protein CR2, conserved region 2 Family
PF00066 Notch 435 469 LNR domain Domain
PF00066 Notch 502 536 LNR domain Domain
PF06464 DMAP_binding 699 814 DMAP1-binding Domain Domain
PF17102 Stealth_CR3 955 1003 Stealth protein CR3, conserved region 3 Family
PF17103 Stealth_CR4 1138 1194 Stealth protein CR4, conserved region 4 Family
Tissue specificity TISSUE SPECIFICITY: Expressed in the heart, whole brain, placenta, lung, liver, skeletal muscle, kidney and pancreas. {ECO:0000269|PubMed:16120602}.
Sequence
MLFKLLQRQTYTCLSHRYGLYVCFLGVVVTIVSAFQFGEVVLEWSRDQYHVLFDSYRDNI
AGKSFQNRLCLPMPIDVVYTWVNGTDLELLKELQQVREQMEEEQKAMREILGKNTTEPTK
KSEKQLECLLTHCIKVPMLVLDPALPANITLKDLPSLYPSFHSASDIFNVAKPKNPSTNV
SVVVFDSTKDVEDAHSGLLKGNSRQTVWRGYLTTDKEVPGLVLMQDLAFLSGFPPTFKET
NQLKTKLPENLSSKVKLLQLYSEASVALLKLNNPKDFQELNKQTKKNMTIDGKELTISPA
YLLWD
LSAISQSKQDEDISASRFEDNEELRYSLRSIERHAPWVRNIFIVTNGQIPSWLNL
DNPRVTIVTHQDVFRNLSHLPTFSSPAIESHIHRIEGLSQKFIYLNDDVMFGKDVWPDDF
YSHSKGQKV
YLTWPVPNCAEGCPGSWIKDGYCDKACNNSACDWDGGDCSGNSGGSRYIAG
GGGTGSIGVGQPWQFGGGINSVSYCNQGCANSWLADKFCDQACNVLSCGFDAGDCGQDHF
HELYKVILLPNQTHYIIPKGECLPYFSFAEVAKRGVEGAYSDNPIIRHASIANKWKTIHL
IMHSGMNATTIHFNLTFQNTNDEEFKMQITVEVDTREGPKLNSTAQKGYENLVSPITLLP
EAEILFEDIPKEKRFPKFKRHDVNSTRRAQEEVKIPLVNISLLPKDAQLSLNTLDLQLEH
GDITLKGYNLSKSALLRSFLMNSQHAKIKNQAIITDETNDSLVAPQEKQVHKSILPNSLG
VSERLQRLTFPAVSVKVNGHDQGQNPPLDLETTA
RFRVETHTQKTIGGNVTKEKPPSLIV
PLESQMTKEKKITGKEKENSRMEENAENHIGVTEVLLGRKLQHYTDSYLGFLPWEKKKYF
QDLLDEEESLKTQLAYFTDSKNTGRQLKDTFADSLRYVNKILNSKFGFTSRKVPAHMPHM
IDRIVMQELQDMFPEEFDKTSFHKVRHSEDMQFAFSYFYYLMS
AVQPLNISQVFDEVDTD
QSGVLSDREIRTLATRIHELPLSLQDLTGLEHMLINCSKMLPADITQLNNIPPTQESYYD
PNLPPVTKSLVTNCKPVTDKIHKAYKDKNKYRFEIMGEEEIAFKMIRTNVSHVVGQLDDI
RKNPRKFVCLNDNIDHNHKDAQTVKAVLRDFYESMFPIPSQFELPREYRNRFLH
MHELQE
WRAYRDKLKFWTHCVLATLIMFTIFSFFAEQLIALKRKIFPRRRIHKEASPNRIRV
Sequence length 1256
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG 
  Lysosome  
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
31
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Abnormality of metabolism/homeostasis Likely pathogenic; Pathogenic rs2137116356, rs281864983 RCV001814474
RCV001814017
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
GNPTAB-mucolipidosis Pathogenic; Likely pathogenic rs2547957136, rs281865004 RCV005637049
RCV005632192
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
GNPTAB-related disorder Pathogenic; Likely pathogenic rs137852897, rs281865031, rs34002892, rs2547957205, rs2547975422, rs281865024, rs397507447, rs281864983 RCV003398424
RCV004528068
RCV004528069
RCV004528688
RCV004529353
View all (3 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Juvenile osteochondrosis of spine Likely pathogenic; Pathogenic rs281864980 RCV000626961
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AVASCULAR NECROSIS OF THE CAPITAL FEMORAL EPIPHYSIS Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cervical cancer Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cholangiocarcinoma Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Anemia Anemia CLINVAR_DG
★☆☆☆☆
Found in Text Mining only
Aortic Valve Insufficiency Aortic Valve Insufficiency HPO_DG
★☆☆☆☆
Found in Text Mining only
Arrhythmogenic Right Ventricular Dysplasia Arrhythmogenic right ventricular cardiomyopathy BEFREE 30288656
★☆☆☆☆
Found in Text Mining only
Arthralgia/arthritis Arthralgia/Arthritis CLINVAR_DG
★☆☆☆☆
Found in Text Mining only
Autistic Disorder Autism CLINVAR_DG 16465621, 20880125, 25606425
★☆☆☆☆
Found in Text Mining only
Cardiomyopathies Cardiomyopathy BEFREE 30288656, 30354311
★☆☆☆☆
Found in Text Mining only
Class III malocclusion Malocclusion HPO_DG
★☆☆☆☆
Found in Text Mining only
Congenital clubfoot Congenital Clubfoot HPO_DG
★☆☆☆☆
Found in Text Mining only
Congenital Epicanthus Congenital Epicanthus HPO_DG
★☆☆☆☆
Found in Text Mining only
Congenital exomphalos Congenital Exomphalos HPO_DG
★☆☆☆☆
Found in Text Mining only