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Aliases for LIN7C Gene

Aliases for LIN7C Gene

  • Lin-7 Homolog C, Crumbs Cell Polarity Complex Component 2 3 5
  • Mammalian Lin-Seven Protein 3 3 4
  • Vertebrate Lin-7 Homolog 3 3 4
  • LIN-7 Protein 3 2 3
  • LIN-7C 3 4
  • Veli-3 3 4
  • MALS-3 3 4
  • MALS3 3 4
  • VELI3 3 4
  • Lin-7 Homolog C (C. Elegans) 2
  • Protein Lin-7 Homolog C 3
  • LIN-7-C 3

External Ids for LIN7C Gene

Previous GeneCards Identifiers for LIN7C Gene

  • GC11M028868
  • GC11M028291
  • GC11M027555
  • GC11M027480
  • GC11M027214

Summaries for LIN7C Gene

GeneCards Summary for LIN7C Gene

LIN7C (Lin-7 Homolog C, Crumbs Cell Polarity Complex Component) is a Protein Coding gene. Among its related pathways are Protein-protein interactions at synapses and Neurotransmitter Release Cycle. GO annotations related to this gene include protein domain specific binding and cytoskeletal protein binding. An important paralog of this gene is LIN7B.

UniProtKB/Swiss-Prot for LIN7C Gene

  • Plays a role in establishing and maintaining the asymmetric distribution of channels and receptors at the plasma membrane of polarized cells. Forms membrane-associated multiprotein complexes that may regulate delivery and recycling of proteins to the correct membrane domains. The tripartite complex composed of LIN7 (LIN7A, LIN7B or LIN7C), CASK and APBA1 may have the potential to couple synaptic vesicle exocytosis to cell adhesion in brain. Ensures the proper localization of GRIN2B (subunit 2B of the NMDA receptor) to neuronal postsynaptic density and may function in localizing synaptic vesicles at synapses where it is recruited by beta-catenin and cadherin. Required to localize Kir2 channels, GABA transporter (SLC6A12) and EGFR/ERBB1, ERBB2, ERBB3 and ERBB4 to the basolateral membrane of epithelial cells.

Gene Wiki entry for LIN7C Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LIN7C Gene

Genomics for LIN7C Gene

Regulatory Elements for LIN7C Gene

Enhancers for LIN7C Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH11G027460 1.5 FANTOM5 Ensembl ENCODE 16.3 +46.3 46282 1.8 ELF3 TBP FOXA2 ZFP64 ARID4B DMAP1 DNMT3B ZSCAN9 RAD21 RARA LIN7C BDNF-AS GC11P027468 GC11P027442
GH11G027505 1.1 ENCODE 21.3 +0.1 108 2.5 PKNOX1 CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF143 LIN7C GC11P027483
GH11G027443 1 ENCODE dbSUPER 23 +62.1 62145 2.5 SOX13 PKNOX1 TEAD4 ARID4B ZMYM3 RBBP5 CHD7 ZNF316 NR2F6 CREM LIN7C LGR4 LOC105376671 BDNF-AS GC11P027442 GC11P027468
GH11G027455 1.3 Ensembl ENCODE dbSUPER 15.3 +50.4 50377 1.2 SOX13 FOXA2 SAP130 JUN CHD4 CEBPG ZNF644 YY1 ZNF121 SCRT2 LIN7C GC11P027442 GC11P027468
GH11G027447 1.1 ENCODE dbSUPER 13.8 +58.7 58729 1.7 TBP PKNOX1 JUN DDX20 FEZF1 ZNF384 THRB DNMT3B TEAD3 ZNF766 BDNF-AS LIN7C LGR4 LOC105376671 GC11P027442 GC11P027468
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LIN7C on UCSC Golden Path with GeneCards custom track

Promoters for LIN7C Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000038166 179 2001 PKNOX1 CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9

Genomic Location for LIN7C Gene

Chromosome:
11
Start:
27,494,418 bp from pter
End:
27,506,779 bp from pter
Size:
12,362 bases
Orientation:
Minus strand

Genomic View for LIN7C Gene

Genes around LIN7C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LIN7C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LIN7C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LIN7C Gene

Proteins for LIN7C Gene

  • Protein details for LIN7C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NUP9-LIN7C_HUMAN
    Recommended name:
    Protein lin-7 homolog C
    Protein Accession:
    Q9NUP9

    Protein attributes for LIN7C Gene

    Size:
    197 amino acids
    Molecular mass:
    21834 Da
    Quaternary structure:
    • Forms two exclusive ternary complexes with CASK and APBA1 or CASKIN1 (By similarity). Can also interact with other modular proteins containing protein-protein interaction domains like MPP5, MPP6, MPP7, DLG1, DLG2 and DLG3 through its L27 domain. Interacts with DLG4 and GRIN2B as well as CDH1 and CTNNB1, the channels KCNJ12/Kir2.2, KCNJ4/Kir2.3 and probably KCNJ2/Kir2.1 and SLC6A12/BGT-1 via its PDZ domain. The association of LIN7A with cadherin and beta-catenin is calcium-dependent, occurs at synaptic junctions and requires the actin cytoskeleton. Interacts with EGFR, ERBB2, ERBB3 and ERBB4 with both PDZ and KID domains. Associates with KIF17 via APBA1. Interacts with HTR4 (By similarity). Forms a tripartite complex composed of DLG1, MPP7 and LIN7 (LIN7A or LIN7C). Interacts with MAPK12 (By similarity).

    Three dimensional structures from OCA and Proteopedia for LIN7C Gene

neXtProt entry for LIN7C Gene

Post-translational modifications for LIN7C Gene

  • Ubiquitination at isoforms=23, posLast=3434, posLast=7676, and posLast=176176
  • Modification sites at PhosphoSitePlus

Other Protein References for LIN7C Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LIN7C Gene

Domains & Families for LIN7C Gene

Gene Families for LIN7C Gene

Protein Domains for LIN7C Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for LIN7C Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9NUP9

UniProtKB/Swiss-Prot:

LIN7C_HUMAN :
  • The kinase interacting site is required for proper delivery of ERBB2 to the basolateral membrane.
  • Belongs to the lin-7 family.
Domain:
  • The kinase interacting site is required for proper delivery of ERBB2 to the basolateral membrane.
  • The PDZ domain regulates endocytosis and recycling of the receptor at the membrane.
  • The L27 domain mediates interaction with CASK and is involved in the formation of multimeric complexes and the association of LIN7 to membranes.
Family:
  • Belongs to the lin-7 family.
genes like me logo Genes that share domains with LIN7C: view

Function for LIN7C Gene

Molecular function for LIN7C Gene

UniProtKB/Swiss-Prot Function:
Plays a role in establishing and maintaining the asymmetric distribution of channels and receptors at the plasma membrane of polarized cells. Forms membrane-associated multiprotein complexes that may regulate delivery and recycling of proteins to the correct membrane domains. The tripartite complex composed of LIN7 (LIN7A, LIN7B or LIN7C), CASK and APBA1 may have the potential to couple synaptic vesicle exocytosis to cell adhesion in brain. Ensures the proper localization of GRIN2B (subunit 2B of the NMDA receptor) to neuronal postsynaptic density and may function in localizing synaptic vesicles at synapses where it is recruited by beta-catenin and cadherin. Required to localize Kir2 channels, GABA transporter (SLC6A12) and EGFR/ERBB1, ERBB2, ERBB3 and ERBB4 to the basolateral membrane of epithelial cells.

Gene Ontology (GO) - Molecular Function for LIN7C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008092 cytoskeletal protein binding IPI 17987659
GO:0019904 protein domain specific binding IPI 17237226
GO:0030165 PDZ domain binding IEA --
GO:0097016 L27 domain binding IDA 20702775
genes like me logo Genes that share ontologies with LIN7C: view
genes like me logo Genes that share phenotypes with LIN7C: view

Animal Models for LIN7C Gene

MGI Knock Outs for LIN7C:

Animal Model Products

CRISPR Products

miRNA for LIN7C Gene

miRTarBase miRNAs that target LIN7C

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LIN7C Gene

Localization for LIN7C Gene

Subcellular locations from UniProtKB/Swiss-Prot for LIN7C Gene

Cell membrane; Peripheral membrane protein. Basolateral cell membrane; Peripheral membrane protein. Cell junction. Cell junction, synapse, postsynaptic cell membrane, postsynaptic density; Peripheral membrane protein. Cell junction, tight junction. Cell junction, synapse, synaptosome. Note=Enriched in synaptosomes and at epithelial cell-cell junctions (By similarity). Mainly basolateral in renal epithelial cells. {ECO:0000250}.

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 LIN7C gene
Compartment Confidence
plasma membrane 5
extracellular 5
cytosol 3
nucleus 2

Gene Ontology (GO) - Cellular Components for LIN7C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA 23201090
GO:0005886 plasma membrane TAS --
GO:0005911 cell-cell junction IDA 23201090
GO:0005923 bicellular tight junction IEA --
GO:0014069 postsynaptic density IEA --
genes like me logo Genes that share ontologies with LIN7C: view

Pathways & Interactions for LIN7C Gene

genes like me logo Genes that share pathways with LIN7C: view

Gene Ontology (GO) - Biological Process for LIN7C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002011 morphogenesis of an epithelial sheet IMP 23201090
GO:0006810 transport IEA --
GO:0006887 exocytosis IEA --
GO:0007269 neurotransmitter secretion TAS --
GO:0015031 protein transport IEA --
genes like me logo Genes that share ontologies with LIN7C: view

No data available for SIGNOR curated interactions for LIN7C Gene

Drugs & Compounds for LIN7C Gene

(1) Drugs for LIN7C Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0
genes like me logo Genes that share compounds with LIN7C: view

Transcripts for LIN7C Gene

mRNA/cDNA for LIN7C Gene

Unigene Clusters for LIN7C Gene

Lin-7 homolog C (C. elegans):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LIN7C Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b
SP1:
SP2: -

Relevant External Links for LIN7C Gene

GeneLoc Exon Structure for
LIN7C
ECgene alternative splicing isoforms for
LIN7C

Expression for LIN7C Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LIN7C Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for LIN7C Gene



Protein tissue co-expression partners for LIN7C Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LIN7C Gene:

LIN7C

SOURCE GeneReport for Unigene cluster for LIN7C Gene:

Hs.91393

Evidence on tissue expression from TISSUES for LIN7C Gene

  • Nervous system(3.3)
genes like me logo Genes that share expression patterns with LIN7C: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LIN7C Gene

Orthologs for LIN7C Gene

This gene was present in the common ancestor of animals.

Orthologs for LIN7C Gene

Organism Taxonomy Gene Similarity Type Details
oppossum
(Monodelphis domestica)
Mammalia LIN7C 35
  • 100 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LIN7C 35
  • 100 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia LIN7C 34 35
  • 99.83 (n)
dog
(Canis familiaris)
Mammalia LIN7C 34
  • 93.57 (n)
cow
(Bos Taurus)
Mammalia LIN7C 34 35
  • 93.06 (n)
mouse
(Mus musculus)
Mammalia Lin7c 34 16 35
  • 90.69 (n)
rat
(Rattus norvegicus)
Mammalia Lin7c 34
  • 90.02 (n)
chicken
(Gallus gallus)
Aves LIN7C 35
  • 99 (a)
OneToOne
LIN7B 34
  • 85.28 (n)
lizard
(Anolis carolinensis)
Reptilia LIN7C 35
  • 94 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lin7c 34
  • 77.33 (n)
zebrafish
(Danio rerio)
Actinopterygii lin7c 34 35
  • 77.16 (n)
fruit fly
(Drosophila melanogaster)
Insecta veli 35
  • 63 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea lin-7 35
  • 64 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10352 35
  • 79 (a)
OneToMany
Species where no ortholog for LIN7C was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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 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 LIN7C Gene

ENSEMBL:
Gene Tree for LIN7C (if available)
TreeFam:
Gene Tree for LIN7C (if available)

Paralogs for LIN7C Gene

Paralogs for LIN7C Gene

(11) SIMAP similar genes for LIN7C Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with LIN7C: view

Variants for LIN7C Gene

Sequence variations from dbSNP and Humsavar for LIN7C Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs1000276094 -- 27,496,290(+) ATCAA(A/G)AAAAT utr-variant-3-prime
rs1000403364 -- 27,495,073(+) ATATC(C/T)ATTTT utr-variant-3-prime
rs1000836613 -- 27,499,954(+) TACTT(C/T)TGAGC intron-variant
rs1001074292 -- 27,506,208(+) GAGGG(A/G)CACAA intron-variant, upstream-variant-2KB
rs1001422200 -- 27,506,354(+) AGTGT(A/T)GTCTG intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for LIN7C Gene

Variant ID Type Subtype PubMed ID
nsv1144545 CNV deletion 24896259

Variation tolerance for LIN7C Gene

Residual Variation Intolerance Score: 47.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.62; 13.20% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LIN7C Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LIN7C

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LIN7C Gene

Disorders for LIN7C Gene

Relevant External Links for LIN7C

Genetic Association Database (GAD)
LIN7C
Human Genome Epidemiology (HuGE) Navigator
LIN7C
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LIN7C

No disorders were found for LIN7C Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LIN7C Gene

Publications for LIN7C Gene

  1. Structural basis for tandem L27 domain-mediated polymerization. (PMID: 20702775) Yang X. … Shen Y. (FASEB J. 2010) 3 4 64
  2. Implication of genetic variants near NEGR1, SEC16B, TMEM18, ETV5/DGKG, GNPDA2, LIN7C/BDNF, MTCH2, BCDIN3D/FAIM2, SH2B1, FTO, MC4R, and KCTD15 with obesity and type 2 diabetes in 7705 Chinese. (PMID: 20215397) Ng M.C. … Ma R.C. (J. Clin. Endocrinol. Metab. 2010) 3 46 64
  3. Association study of theta EEG asymmetry and brain-derived neurotrophic factor gene variants in childhood-onset mood disorder. (PMID: 18543122) Bulgin N.L. … Kennedy J.L. (Neuromolecular Med. 2008) 3 46 64
  4. Association study of brain-derived neurotrophic factor (BDNF) and LIN-7 homolog (LIN-7) genes with adult attention-deficit/hyperactivity disorder. (PMID: 18286632) Lanktree M. … Muglia P. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2008) 3 46 64
  5. Lin-7C/VELI3/MALS-3: an essential component in metastasis of human squamous cell carcinoma. (PMID: 17942893) Onda T. … Tanzawa H. (Cancer Res. 2007) 3 22 64

Products for LIN7C Gene

Sources for LIN7C Gene

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