This gene encodes a type I transmembrane lectin that shuttles between the endoplasmic reticulum, the Golgi apparatus and the plasma membrane. The encoded protein binds high mannose type glycoproteins and may facilitate their sorting, trafficking and quality control. [provided by RefSeq, Oct 2008] See more...

Aliases for LMAN2 Gene

Aliases for LMAN2 Gene

  • Lectin, Mannose Binding 2 2 3 5
  • VIP36 2 3 4
  • Vesicular Integral-Membrane Protein VIP36 3 4
  • Vesicular Integral-Membrane Protein 36 3 4
  • Glycoprotein GP36b 3 4
  • C5orf8 3 4
  • GP36B 2 3
  • Epididymis Secretory Sperm Binding Protein 3
  • Vesicular Integral Protein Of 36 KDa 3
  • Chromosome 5 Open Reading Frame 8 2
  • Lectin, Mannose-Binding 2 2
  • Lectin Mannose-Binding 2 4
  • LMAN2 5

External Ids for LMAN2 Gene

Previous HGNC Symbols for LMAN2 Gene

  • C5orf8

Previous GeneCards Identifiers for LMAN2 Gene

  • GC05M176694
  • GC05M176739
  • GC05M176691
  • GC05M176758
  • GC05M171681
  • GC05M177332
  • GC05M177354
  • GC05M177366
  • GC05M177368
  • GC05M177388
  • GC05M177333
  • GC05M177342
  • GC05M177350

Summaries for LMAN2 Gene

Entrez Gene Summary for LMAN2 Gene

  • This gene encodes a type I transmembrane lectin that shuttles between the endoplasmic reticulum, the Golgi apparatus and the plasma membrane. The encoded protein binds high mannose type glycoproteins and may facilitate their sorting, trafficking and quality control. [provided by RefSeq, Oct 2008]

GeneCards Summary for LMAN2 Gene

LMAN2 (Lectin, Mannose Binding 2) is a Protein Coding gene. Among its related pathways are Transport to the Golgi and subsequent modification and Metabolism of proteins. Gene Ontology (GO) annotations related to this gene include carbohydrate binding and heat shock protein binding. An important paralog of this gene is LMAN2L.

UniProtKB/Swiss-Prot Summary for LMAN2 Gene

  • Plays a role as an intracellular lectin in the early secretory pathway. Interacts with N-acetyl-D-galactosamine and high-mannose type glycans and may also bind to O-linked glycans. Involved in the transport and sorting of glycoproteins carrying high mannose-type glycans (By similarity).

Gene Wiki entry for LMAN2 Gene

Additional gene information for LMAN2 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LMAN2 Gene

Genomics for LMAN2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LMAN2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05J177350 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 600.7 -0.9 -933 6 SP1 CREB1 GATAD2A ZBTB33 TEAD4 PRDM10 REST ZNF629 SIX5 LEF1 LMAN2 lnc-MXD3-2 FAF2 NSD1 ENSG00000247679 FAM193B RGS14 PDLIM7 UIMC1 ZNF346
GH05J177355 Promoter 0.7 EPDnew 600.7 -4.2 -4222 0.1 MNT USF2 USF1 NFYB MAX RAD51 L3MBTL2 CBFA2T2 LMAN2 RGS14
GH05J177443 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 10.9 -94.6 -94638 6.2 HNRNPL GATAD2A PRDM10 TFE3 ZNF512 RFX1 SOX13 NFKBIZ ZNF692 POLR2A PRR7 PRR7-AS1 NSD1 FAF2 UIMC1 ZNF346 ENSG00000247679 FAM193B F12 GRK6
GH05J177085 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas 5.6 +263.5 263479 5.2 HNRNPL GATAD2A CTCF ZNF629 PRDM10 REST TFE3 LEF1 SOX13 IKZF1 FGFR4 FAF2 ZNF346-IT1 ENSG00000247679 NSD1 ENSG00000250909 FAM193B ENSG00000246596 ENSG00000251414 ZNF346
GH05J177324 Enhancer 1 Ensembl ENCODE 12.3 +24.7 24679 4 HNRNPL CREB1 GATAD2A ATF7 PRDM10 TFE3 ZNF512 SOX13 PRDM1 RFX1 RGS14 LMAN2 SLC34A1 PRELID1 RAB24 MXD3 FGFR4 lnc-MXD3-1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LMAN2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LMAN2

Top Transcription factor binding sites by QIAGEN in the LMAN2 gene promoter:
  • AML1a
  • c-Myb
  • LCR-F1
  • MIF-1
  • RFX1
  • RORalpha2
  • RREB-1
  • STAT5A
  • YY1

Genomic Locations for LMAN2 Gene

Genomic Locations for LMAN2 Gene
chr5:177,331,567-177,351,668
(GRCh38/hg38)
Size:
20,102 bases
Orientation:
Minus strand
chr5:176,758,563-176,778,885
(GRCh37/hg19)
Size:
20,323 bases
Orientation:
Minus strand

Genomic View for LMAN2 Gene

Genes around LMAN2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LMAN2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LMAN2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LMAN2 Gene

Proteins for LMAN2 Gene

  • Protein details for LMAN2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q12907-LMAN2_HUMAN
    Recommended name:
    Vesicular integral-membrane protein VIP36
    Protein Accession:
    Q12907
    Secondary Accessions:
    • Q53HH1

    Protein attributes for LMAN2 Gene

    Size:
    356 amino acids
    Molecular mass:
    40229 Da
    Cofactor:
    Name=Ca(2+); Xref=ChEBI:CHEBI:29108;
    Quaternary structure:
    No Data Available

neXtProt entry for LMAN2 Gene

Post-translational modifications for LMAN2 Gene

  • Glycosylation at Asn183
  • Ubiquitination at Lys126, Lys300, and Lys303
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • LMAN2_HUMAN (1892)

Other Protein References for LMAN2 Gene

No data available for DME Specific Peptides for LMAN2 Gene

Domains & Families for LMAN2 Gene

Gene Families for LMAN2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for LMAN2 Gene

InterPro:
Blocks:
  • Legume-like lectin
ProtoNet:

Suggested Antigen Peptide Sequences for LMAN2 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ52285, highly similar to Vesicular integral-membrane protein VIP36 (B4DWN1_HUMAN)
  • Vesicular integral-membrane protein 36 (LMAN2_HUMAN)
genes like me logo Genes that share domains with LMAN2: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LMAN2 Gene

Function for LMAN2 Gene

Molecular function for LMAN2 Gene

UniProtKB/Swiss-Prot Function:
Plays a role as an intracellular lectin in the early secretory pathway. Interacts with N-acetyl-D-galactosamine and high-mannose type glycans and may also bind to O-linked glycans. Involved in the transport and sorting of glycoproteins carrying high mannose-type glycans (By similarity).

Phenotypes From GWAS Catalog for LMAN2 Gene

Gene Ontology (GO) - Molecular Function for LMAN2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 20477988
GO:0005537 mannose binding IBA,IMP 20477988
GO:0030246 carbohydrate binding IEA,IDA 23701871
GO:0031072 heat shock protein binding IPI 20477988
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with LMAN2: view
genes like me logo Genes that share phenotypes with LMAN2: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LMAN2

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LMAN2 Gene

Localization for LMAN2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LMAN2 Gene

Endoplasmic reticulum-Golgi intermediate compartment membrane. Single-pass type I membrane protein. Golgi apparatus membrane. Single-pass membrane protein. Endoplasmic reticulum membrane. Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LMAN2 gene
Compartment Confidence
plasma membrane 5
extracellular 5
golgi apparatus 5
endoplasmic reticulum 4
cytosol 2
cytoskeleton 1
mitochondrion 1
nucleus 1
endosome 1
lysosome 1
peroxisome 0

Gene Ontology (GO) - Cellular Components for LMAN2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IBA 21873635
GO:0005615 extracellular space IDA 22016386
GO:0005783 endoplasmic reticulum IEA --
GO:0005789 endoplasmic reticulum membrane IBA 21873635
GO:0005793 endoplasmic reticulum-Golgi intermediate compartment IDA 15308636
genes like me logo Genes that share ontologies with LMAN2: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LMAN2 Gene

Pathways & Interactions for LMAN2 Gene

genes like me logo Genes that share pathways with LMAN2: view

Pathways by source for LMAN2 Gene

1 GeneGo (Thomson Reuters) pathway for LMAN2 Gene
  • Cholesterol and Sphingolipids transport / Transport from Golgi and ER to the apical membrane (normal and CF)

Gene Ontology (GO) - Biological Process for LMAN2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006888 ER to Golgi vesicle-mediated transport IBA 21873635
GO:0006890 retrograde vesicle-mediated transport, Golgi to ER IMP 20477988
GO:0007029 endoplasmic reticulum organization IBA 21873635
GO:0007030 Golgi organization IBA 21873635
GO:0015031 protein transport IEA --
genes like me logo Genes that share ontologies with LMAN2: view

No data available for SIGNOR curated interactions for LMAN2 Gene

Drugs & Compounds for LMAN2 Gene

(2) Drugs for LMAN2 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Calcium Nutra 6556

(1) Additional Compounds for LMAN2 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with LMAN2: view

Transcripts for LMAN2 Gene

mRNA/cDNA for LMAN2 Gene

1 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
8 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LMAN2

Alternative Splicing Database (ASD) splice patterns (SP) for LMAN2 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4a · 4b · 4c · 4d ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8a · 8b · 8c
SP1: -
SP2: - -
SP3:
SP4: - - - - - -
SP5: -
SP6: -

Relevant External Links for LMAN2 Gene

GeneLoc Exon Structure for
LMAN2

Expression for LMAN2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LMAN2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LMAN2 Gene

This gene is overexpressed in Urine (21.0) and Nasal epithelium (8.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LMAN2 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LMAN2

SOURCE GeneReport for Unigene cluster for LMAN2 Gene:

Hs.75864

mRNA Expression by UniProt/SwissProt for LMAN2 Gene:

Q12907-LMAN2_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for LMAN2 Gene

  • Nervous system(4.9)
  • Liver(4.6)
  • Muscle(4.5)
  • Lung(3.9)
  • Pancreas(3.6)
  • Skin(3.4)
  • Intestine(3.2)
  • Kidney(2.9)
  • Stomach(2.4)
  • Spleen(2.2)
  • Eye(2.1)
  • Heart(2)
genes like me logo Genes that share expression patterns with LMAN2: view

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for LMAN2 Gene

Orthologs for LMAN2 Gene

This gene was present in the common ancestor of animals.

Orthologs for LMAN2 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LMAN2 30 31
  • 99.63 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia LMAN2 30 31
  • 91.95 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia LMAN2 30 31
  • 90.73 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Lman2 30
  • 88.86 (n)
Mouse
(Mus musculus)
Mammalia Lman2 30 17 31
  • 88.58 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia LMAN2 31
  • 86 (a)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia LMAN2 31
  • 80 (a)
OneToOne
Chicken
(Gallus gallus)
Aves LMAN2 30 31
  • 80.09 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia LMAN2 31
  • 85 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia lman2 30
  • 72.17 (n)
Str.5932 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.22835 30
Zebrafish
(Danio rerio)
Actinopterygii lman2 30 31
  • 71.2 (n)
OneToOne
wufb16f04 30
Fruit Fly
(Drosophila melanogaster)
Insecta CG5510 31
  • 47 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea ile-2 31
  • 43 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.8400 31
  • 47 (a)
OneToMany
Species where no ortholog for LMAN2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for LMAN2 Gene

ENSEMBL:
Gene Tree for LMAN2 (if available)
TreeFam:
Gene Tree for LMAN2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LMAN2: view image

Paralogs for LMAN2 Gene

Paralogs for LMAN2 Gene

(2) SIMAP similar genes for LMAN2 Gene using alignment to 5 proteins:

  • LMAN2_HUMAN
  • D6RBH1_HUMAN
  • D6RBV2_HUMAN
  • D6RDX1_HUMAN
  • D6RIU4_HUMAN
genes like me logo Genes that share paralogs with LMAN2: view

Variants for LMAN2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LMAN2 Gene

SNP ID Clinical significance and condition Chr 05 pos Variation AA Info Type
711392 Benign: not provided 177,332,169(-) C/T MISSENSE_VARIANT
792023 Benign: not provided 177,351,532(-) A/G MISSENSE_VARIANT

Additional dbSNP identifiers (rs#s) for LMAN2 Gene

Structural Variations from Database of Genomic Variants (DGV) for LMAN2 Gene

Variant ID Type Subtype PubMed ID
esv2759396 CNV gain 17122850
nsv1161311 CNV duplication 26073780
nsv1161312 CNV deletion 26073780
nsv428132 CNV gain 18775914
nsv471057 CNV loss 18288195
nsv509103 CNV insertion 20534489
nsv600364 CNV loss 21841781
nsv819674 CNV loss 19587683
nsv964979 CNV duplication 23825009

Variation tolerance for LMAN2 Gene

Residual Variation Intolerance Score: 17.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.02; 37.20% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LMAN2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LMAN2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LMAN2 Gene

Disorders for LMAN2 Gene

No disorders were found for LMAN2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LMAN2 Gene

Publications for LMAN2 Gene

  1. Profile-based data base scanning for animal L-type lectins and characterization of VIPL, a novel VIP36-like endoplasmic reticulum protein. (PMID: 12609988) Nufer O … Hauri HP (The Journal of biological chemistry 2003) 2 3 23
  2. VIP36 localisation to the early secretory pathway. (PMID: 10444376) Füllekrug J … Simons K (Journal of cell science 1999) 3 4 23
  3. Molecular basis of sugar recognition by the human L-type lectins ERGIC-53, VIPL, and VIP36. (PMID: 18025080) Kamiya Y … Kato K (The Journal of biological chemistry 2008) 3 23
  4. Stable interaction of the cargo receptor VIP36 with molecular chaperone BiP. (PMID: 17586539) Nawa D … Yamamoto K (Glycobiology 2007) 3 23
  5. Sugar-binding properties of VIP36, an intracellular animal lectin operating as a cargo receptor. (PMID: 16129679) Kamiya Y … Kato K (The Journal of biological chemistry 2005) 3 23

Products for LMAN2 Gene

Sources for LMAN2 Gene