Lum lumican [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Lumprovided by MGI
Official Full Name: lumicanprovided by MGI
Primary source: MGI:MGI:109347
See related: Ensembl:ENSMUSG00000036446 AllianceGenome:MGI:109347
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Ldc; SLRR2D
Summary: Predicted to enable collagen binding activity. Involved in positive regulation of transforming growth factor beta1 production. Acts upstream of or within positive regulation of transcription by RNA polymerase II. Located in extracellular matrix. Is expressed in several structures, including alimentary system; ear; genitourinary system; heart and pericardium; and nervous system. Used to study Ehlers-Danlos syndrome classic type 1. Human ortholog(s) of this gene implicated in carotid artery disease; coronary artery disease; and pancreatic cancer. Orthologous to human LUM (lumican). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in bladder adult (RPKM 192.5), limb E14.5 (RPKM 161.5) and 13 other tissues See more
Orthologs: human all
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Genomic context

Location:: 10 C3; 10 50.32 cM

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	10	NC_000076.7 (97401363..97408565)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	10	NC_000076.6 (97565501..97572703)

Chromosome 10 - NC_000076.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Downregulation of B4GALT5 attenuates cardiac fibrosis through Lumican and Akt/GSK-3beta/beta-catenin pathway.
Title: Downregulation of B4GALT5 attenuates cardiac fibrosis through Lumican and Akt/GSK-3β/β-catenin pathway.
Impaired healing in an incision wound in corneal stroma in a lumican-null mouse.
Title: Impaired healing in an incision wound in corneal stroma in a lumican-null mouse.
Lumican, an Exerkine, Protects against Skeletal Muscle Loss.
Title: Lumican, an Exerkine, Protects against Skeletal Muscle Loss.
Matrix lumican endocytosed by immune cells controls receptor ligand trafficking to promote TLR4 and restrict TLR9 in sepsis.
Title: Matrix lumican endocytosed by immune cells controls receptor ligand trafficking to promote TLR4 and restrict TLR9 in sepsis.
Lumican Inhibits In Vivo Melanoma Metastasis by Altering Matrix-Effectors and Invadopodia Markers.
Title: Lumican Inhibits In Vivo Melanoma Metastasis by Altering Matrix-Effectors and Invadopodia Markers.
Moderate Loss of the Extracellular Matrix Proteoglycan Lumican Attenuates Cardiac Fibrosis in Mice Subjected to Pressure Overload.
Title: Moderate Loss of the Extracellular Matrix Proteoglycan Lumican Attenuates Cardiac Fibrosis in Mice Subjected to Pressure Overload.
The extracellular matrix proteoglycan lumican improves survival and counteracts cardiac dilatation and failure in mice subjected to pressure overload.
Title: The extracellular matrix proteoglycan lumican improves survival and counteracts cardiac dilatation and failure in mice subjected to pressure overload.
this study shows that Lum negatively regulates encephalitic TH17 cells, implicating a potential therapeutic pathway in TH17 cell mediated autoimmune and inflammatory diseases
Title: Lumican negatively controls the pathogenicity of murine encephalitic TH17 cells.
ectopic mutant lumican (L199P) may induce enlargement of axial lengths and abnormal structures and distributions of collagen fibrils in mouse sclera
Title: Enlargement of the Axial Length and Altered Ultrastructural Features of the Sclera in a Mutant Lumican Transgenic Mouse Model.
alternations of lumican might be implicated in the pathogenesis of cardiac fibrosis
Title: Lumican-null mice are susceptible to aging and isoproterenol-induced myocardial fibrosis.

Submit: New GeneRIF Correction See all GeneRIFs (26)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (4)
Targeted (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables collagen binding	IBA Inferred from Biological aspect of Ancestor more info
enables collagen binding	IEA Inferred from Electronic Annotation more info
enables collagen binding	ISO Inferred from Sequence Orthology more info
enables extracellular matrix structural constituent conferring compression resistance	RCA inferred from Reviewed Computational Analysis more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transforming growth factor beta1 production	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in collagen-containing extracellular matrix	HDA more info	PubMed
located_in extracellular matrix	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular region	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
part_of fibrillar collagen trimer	IEA Inferred from Electronic Annotation more info
part_of fibrillar collagen trimer	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: lumican

Names: KSPG lumican; keratan sulfate proteoglycan lumican

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_008524.2 → NP_032550.2 lumican precursor

See identical proteins and their annotated locations for NP_032550.2

Status: VALIDATED

Source sequence(s)

AK075737, CF731113

Consensus CDS

CCDS24142.1

UniProtKB/Swiss-Prot

P51885, Q3TP25, Q99JZ3, Q9CXK0

Related

ENSMUSP00000040877.5, ENSMUST00000038160.6

Conserved Domains (4) summary

smart00013
Location:37 → 71

LRRNT; Leucine rich repeat N-terminal domain

cd00116
Location:66 → 267

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00033
Location:68 → 91

LRR_RI; leucine-rich repeat [structural motif]

pfam13855
Location:66 → 128

LRR_8; Leucine rich repeat