Lrrc4c MGI Mouse Gene Detail - MGI:2442636 - leucine rich repeat containing 4C

Symbol

Lrrc4c
Name

leucine rich repeat containing 4C
Synonyms

6430556C10Rik, mKIAA1580, netrin g1 ligand, NGL-1

Feature Type

protein coding gene
IDs

MGI:2442636
NCBI Gene: 241568
Alliance

gene page
Transcription Start Sites

22 TSS

Sequence Map

Chr2:96148514-97462011 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 2, 52.30 cM
Mapping Data

1 experiment

SNPs within 2kb

10046 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2442636	protein coding gene	Chr2:96148514-97466871 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0026187	protein coding gene	Chr2:97933196-99299983 (+)
A/J	MGP_AJ_G0026148	protein coding gene	Chr2:93957203-95245908 (+)
AKR/J	MGP_AKRJ_G0026129	protein coding gene	Chr2:96562195-97906189 (+)
BALB/cJ	MGP_BALBcJ_G0026157	protein coding gene	Chr2:94150863-95470794 (+)
C3H/HeJ	MGP_C3HHeJ_G0025908	protein coding gene	Chr2:96830201-98172597 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0026608	protein coding gene	Chr2:101210125-102618479 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0023999	protein coding gene	Chr2:90201642-91448804 (+)
CAST/EiJ	MGP_CASTEiJ_G0025373	protein coding gene	Chr2:97405963-98762442 (+)
CBA/J	MGP_CBAJ_G0025886	protein coding gene	Chr2:104734519-106191253 (+)
DBA/2J	MGP_DBA2J_G0026022	protein coding gene	Chr2:93538810-94831530 (+)
FVB/NJ	MGP_FVBNJ_G0025985	protein coding gene	Chr2:92649735-93919282 (+)
LP/J	MGP_LPJ_G0026126	protein coding gene	Chr2:98117073-99483820 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0026011	protein coding gene	Chr2:107825632-109604506 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0026662	protein coding gene	Chr2:96667013-98018969 (+)
PWK/PhJ	MGP_PWKPhJ_G0025108	protein coding gene	Chr2:93237100-94541330 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0024909	protein coding gene	Chr2:96161141-97458299 (+)
WSB/EiJ	MGP_WSBEiJ_G0025440	protein coding gene	Chr2:97240393-98600577 (+)

Human Ortholog

LRRC4C, leucine rich repeat containing 4C

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

LRRC4C, leucine rich repeat containing 4C
Synonyms

NGL1, NGL-1
Links

HGNC:29317

NCBI Gene ID: 57689

neXtProt AC: NX_Q9HCJ2

UniProt: Q9HCJ2
Chr Location

11p12; chr11:40107066-41460212 (-) GRCh38.p7

Alliance of Genome Resources

Lrrc4c stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: LRRC4C
Gene Tree

Lrrc4c

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Phenotype Summary

1 phenotype from 1 allele in 1 genetic background
15 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

9
Chemically induced (other)

1
Endonuclease-mediated

1
Radiation induced

1
Targeted

6
Genomic Mutations

4 involving Lrrc4c
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

22 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous mutant mice exhibited an increased mean serum IL-6 response to LPS challenge when compared with controls. No other notable phenotype was detected in a high-througput screen.

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All GO Annotations

32
GO References

7

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 population 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	protein-containing complex	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

726
Tissues

17
cDNA Data

11
Literature Summary

5

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase lrrc4c

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Lrrc4c interacts with 263 markers (Mir7-2, Mir7b, Mir9-1, ...) View All

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All Sequences

60
RefSeq

18
UniProt

2
CCDS

CCDS16460.1

Ensembl

ENSMUSG00000050587 (Evidence)
NCBI Gene

241568

			Length	Strain/Species	Flank
genomic	ENSMUSG00000050587	Ensembl Gene Model \| MGI Sequence Detail	1313498	C57BL/6J	± kb
transcript	ENSMUST00000135431	Ensembl \| MGI Sequence Detail	3646	Not Applicable
polypeptide	ENSMUSP00000130984	Ensembl \| MGI Sequence Detail	640	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000009937 netrin-G1 ligand

(term hierarchy)
InterPro Domains

IPR026906 BspA type Leucine rich repeat region

IPR013098 Immunoglobulin I-set

IPR007110 Immunoglobulin-like domain

IPR036179 Immunoglobulin-like domain superfamily

IPR013783 Immunoglobulin-like fold

IPR003599 Immunoglobulin subtype

IPR003598 Immunoglobulin subtype 2

IPR013106 Immunoglobulin V-set domain

IPR001611 Leucine-rich repeat

IPR026878 Leucine-rich repeat-containing protein 4C

IPR032675 Leucine-rich repeat domain superfamily

IPR000372 Leucine-rich repeat N-terminal domain

IPR003591 Leucine-rich repeat, typical subtype

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All nucleic 13

cDNA 11

Primer pair 1

Other 1

Microarray probesets 2

Summaries

All 43

Developmental Gene Expression 5

Gene Ontology 7

Phenotypes 15
Earliest

J:109968 Roderick TH, et al., Nineteen paracentric chromosomal inversions in mice. Genetics. 1974 Jan;76(1):109-17
Latest

J:297399 Vuong HE, et al., The maternal microbiome modulates fetal neurodevelopment in mice. Nature. 2020 Oct;586(7828):281-286

TSS for Lrrc4c:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr19006	Chr2:96148096-96148126 (+)	-403 bp
Tssr19007	Chr2:96148128-96148150 (+)	-375 bp
Tssr19008	Chr2:96148165-96148176 (+)	-343 bp
Tssr19009	Chr2:96148280-96148292 (+)	-228 bp
Tssr19010	Chr2:96148359-96148402 (+)	-133 bp
Tssr19011	Chr2:96148418-96148429 (+)	-90 bp
Tssr19012	Chr2:96148704-96148748 (+)	212 bp
Tssr19013	Chr2:96171420-96171437 (+)	22,915 bp
Tssr19014	Chr2:96665123-96665125 (+)	516,610 bp
Tssr19015	Chr2:96955464-96955467 (+)	806,952 bp
Tssr19016	Chr2:97296792-97296830 (+)	1,148,297 bp
Tssr19017	Chr2:97297821-97297850 (+)	1,149,322 bp
Tssr19018	Chr2:97297884-97297904 (+)	1,149,380 bp
Tssr19019	Chr2:97297920-97297931 (+)	1,149,412 bp
Tssr19020	Chr2:97298031-97298044 (+)	1,149,524 bp
Tssr19021	Chr2:97310459-97310465 (+)	1,161,948 bp
Tssr19022	Chr2:97327701-97327703 (+)	1,179,188 bp
Tssr19023	Chr2:97332857-97332861 (+)	1,184,345 bp
Tssr19024	Chr2:97356481-97356485 (+)	1,207,969 bp
Tssr19025	Chr2:97461101-97461113 (+)	1,312,593 bp
Tssr19026	Chr2:97461142-97461163 (+)	1,312,639 bp
Tssr19027	Chr2:97461172-97461181 (+)	1,312,663 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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