Lum MGI Mouse Gene Detail - MGI:109347

Symbol

Lum
Name

lumican
Synonyms

Ldc, SLRR2D

Feature Type

protein coding gene
IDs

MGI:109347
NCBI Gene: 17022
Gene Overview

MyGene.info: LUM
Alliance

gene page
Transcription Start Sites

8 TSS

Sequence Map

Chr10:97565501-97572703 bp, + strand
From NCBI annotation of GRCm38

View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 10, 50.32 cM
Mapping Data

7 experiments

SNPs within 2kb

67 from dbSNP Build 142
Strain Annotations

18
RFLP

3

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_109347	protein coding gene	Chr10:97565128-97572703 (.)
129S1/SvImJ	MGP_129S1SvImJ_G0017676	protein coding gene	Chr10:99299283-99306481 (+)
A/J	MGP_AJ_G0017655	protein coding gene	Chr10:95731685-95738874 (+)
AKR/J	MGP_AKRJ_G0017615	protein coding gene	Chr10:98454503-98461701 (+)
BALB/cJ	MGP_BALBcJ_G0017619	protein coding gene	Chr10:96028109-96035210 (+)
C3H/HeJ	MGP_C3HHeJ_G0017442	protein coding gene	Chr10:98484246-98493293 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0018075	protein coding gene	Chr10:102731074-102739325 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0015757	protein coding gene	Chr10:91247455-91254625 (+)
CAST/EiJ	MGP_CASTEiJ_G0017005	protein coding gene	Chr10:98550561-98557820 (+)
CBA/J	MGP_CBAJ_G0017411	protein coding gene	Chr10:106754667-106771352 (+)
DBA/2J	MGP_DBA2J_G0017517	protein coding gene	Chr10:94801073-94808374 (+)
FVB/NJ	MGP_FVBNJ_G0017510	protein coding gene	Chr10:94065771-94073011 (+)
LP/J	MGP_LPJ_G0017591	protein coding gene	Chr10:99889831-99896968 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0017540	protein coding gene	Chr10:107916799-107926995 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0018113	protein coding gene	Chr10:98384957-98392165 (+)
PWK/PhJ	MGP_PWKPhJ_G0016787	protein coding gene	Chr10:94956847-94964057 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0016576	protein coding gene	Chr10:97262829-97269996 (+)
WSB/EiJ	MGP_WSBEiJ_G0017065	protein coding gene	Chr10:98390270-98398687 (+)

Human Ortholog

LUM, lumican

Vertebrate Orthologs

10

Human Ortholog

LUM, lumican
Orthology source: HomoloGene, HGNC
Synonyms

LDC, SLRR2D
Links

HGNC:6724

NCBI Gene ID: 4060

neXtProt AC: NX_P51884

UniProt: P51884
Chr Location

12q21.33; chr12:91103455-91111765 (-) GRCh38.p7

HomoloGene

Vertebrate Homology Class 37614
1 human;1 mouse;1 rat;1 chimpanzee;1 cattle;1 dog;1 chicken;1 zebrafish;1 frog, western clawed;1 macaque, rhesus
HCOP

human homology predictions: LUM
Protein SuperFamily

class II small leucine-rich proteoglycan
Gene Tree

Lum

Diseases

1 with Lum mouse models

Human Disease

Mouse Models

type I Ehlers-Danlos syndrome

IDs

View 2 models

Click on a disease name to see all genes associated with that disease.

Mutations/Alleles

1 with disease annotations

References

2 with disease annotations

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Phenotype Summary

33 phenotypes from 3 alleles in 4 genetic backgrounds
23 phenotypes from multigenic genotypes
3 images
41 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	immune system	integument	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	neoplasm	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	vision/eye

Click cells to view annotations.

All Mutations and Alleles

5
Chemically induced (other)

1
Targeted

4
Genomic Mutations

1 involving Lum
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

11 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for targeted disruptions of this gene have abnormally large and aberrantly contoured collagen fibrils forming a disorganized matrix in the tendon, skin, cornea and sclera, with consequent reductions in skin tensile strength and corneal clarity.

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All GO Annotations

14
GO References

12

External Resources

FuncBase

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell death	cell differentiation	cell proliferation	cellular component organization	establishment of localization	homeostatic process	immune system process	lipid metabolic process	nucleic acid-templated transcription	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	non-membrane-bounded organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

316
Tissues

74
cDNA Data

119
Literature Summary

23

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase lum

ZFIN lum

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Lum interacts with 126 markers (Mir1a-1, Mir1a-2, Mir1b, ...) View All

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All Sequences

34
RefSeq

2
UniProt

1
CCDS

CCDS24142.1
UniGene

18888

Ensembl

ENSMUSG00000036446 (Evidence)
NCBI Gene

17022

			Length	Strain/Species	Flank
genomic	17022	NCBI Gene Model \| MGI Sequence Detail	7203	C57BL/6J	± kb
transcript	NM_008524	RefSeq \| MGI Sequence Detail	2075	C57BL/6
polypeptide	P51885	UniProt \| EBI \| MGI Sequence Detail	338	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000009981 lumican

(term hierarchy)
InterPro Domains

IPR001611 Leucine-rich repeat

IPR032675 Leucine-rich repeat domain superfamily

IPR000372 Leucine-rich repeat N-terminal domain

IPR003591 Leucine-rich repeat, typical subtype

IPR027219 Lumican

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All nucleic 126

Genomic 4

cDNA 120

Primer pair 1

Other 1

Microarray probesets 3

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MGD-MRK-23785, MGD-MRK-38392

Summaries

All 98

Developmental Gene Expression 23

Diseases 2

Gene Ontology 12

Phenotypes 41
Earliest

J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
Latest

J:265607 Naba A, et al., Quantitative proteomic profiling of the extracellular matrix of pancreatic islets during the angiogenic switch and insulinoma progression. Sci Rep. 2017 Jan 10;7:40495

TSS for Lum:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr95479	Chr10:97565415-97565431 (+)	-78 bp
Tssr95480	Chr10:97565436-97565546 (+)	-10 bp
Tssr95481	Chr10:97565552-97565564 (+)	57 bp
Tssr95482	Chr10:97565578-97565597 (+)	87 bp
Tssr95483	Chr10:97565636-97565671 (+)	153 bp
Tssr95484	Chr10:97565682-97565695 (+)	188 bp
Tssr95485	Chr10:97565756-97565774 (+)	264 bp
Tssr95486	Chr10:97565778-97565820 (+)	298 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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