Lrfn4 MGI Mouse Gene Detail - MGI:2385612 - leucine rich repeat and fibronectin type III domain containing 4

Symbol

Lrfn4
Name

leucine rich repeat and fibronectin type III domain containing 4
Synonyms

MGC:36464, MGC:36545, SALM3

Feature Type

protein coding gene
IDs

MGI:2385612
NCBI Gene: 225875
Alliance

gene page
Transcription Start Sites

4 TSS

Sequence Map

Chr19:4661813-4665695 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 19, 4.07 cM
Mapping Data

1 experiment

SNPs within 2kb

98 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2385612	protein coding gene	Chr19:4661813-4665720 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0024667	protein coding gene	Chr19:1498973-1502855 (-)
A/J	MGP_AJ_G0024633	protein coding gene	Chr19:1422025-1425907 (-)
AKR/J	MGP_AKRJ_G0024606	protein coding gene	Chr19:1463864-1467746 (-)
BALB/cJ	MGP_BALBcJ_G0024633	protein coding gene	Chr19:1417322-1421204 (-)
C3H/HeJ	MGP_C3HHeJ_G0024401	protein coding gene	Chr19:1470851-1474733 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0025081	protein coding gene	Chr19:1551217-1555099 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022510	protein coding gene	Chr19:1357862-1361739 (-)
CAST/EiJ	MGP_CASTEiJ_G0023873	protein coding gene	Chr19:1480986-1484869 (-)
CBA/J	MGP_CBAJ_G0024372	protein coding gene	Chr19:1618387-1622269 (-)
DBA/2J	MGP_DBA2J_G0024500	protein coding gene	Chr19:1386034-1389916 (-)
FVB/NJ	MGP_FVBNJ_G0024467	protein coding gene	Chr19:1412187-1416069 (-)
LP/J	MGP_LPJ_G0024586	protein coding gene	Chr19:1507619-1511501 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0024497	protein coding gene	Chr19:1532357-1536239 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0025128	protein coding gene	Chr19:1462534-1466416 (-)
PWK/PhJ	MGP_PWKPhJ_G0023619	protein coding gene	Chr19:1444339-1448221 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0023424	protein coding gene	Chr19:1454707-1458592 (-)
WSB/EiJ	MGP_WSBEiJ_G0023935	protein coding gene	Chr19:1458172-1462055 (-)

Human Ortholog

LRFN4, leucine rich repeat and fibronectin type III domain containing 4

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

LRFN4, leucine rich repeat and fibronectin type III domain containing 4
Synonyms

FIGLER6, SALM3, SALM3.
Links

HGNC:28456

NCBI Gene ID: 78999

neXtProt AC: NX_Q6PJG9

UniProt: Q6PJG9
Chr Location

11q13.2; chr11:66856647-66860475 (+) GRCh38

MGI Vertebrate Homology

Lrfn4 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: LRFN4
Gene Tree

Lrfn4

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Phenotype Summary

5 phenotypes from 1 allele in 1 genetic background
3 phenotypes from multigenic genotypes
5 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	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

3
Targeted

3
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

22 strains or lines available

Mice homozygous for a knock-out allele display hypoactivity and a decreased excitatory synapse number in the hippocampal CA1 region, but show normal synaptic plasticity and hippocampus-dependent learning and memory.

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All GO Annotations

20
GO References

5

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 differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	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	membraneless 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

779
Tissues

62
cDNA Data

50
Literature Summary

6

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase lrfn4

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All Sequences

44
RefSeq

4
UniProt

1
CCDS

CCDS29431.1

Ensembl

ENSMUSG00000045045 (Evidence)
NCBI Gene

225875

			Length	Strain/Species	Flank
genomic	ENSMUSG00000045045	Ensembl Gene Model \| MGI Sequence Detail	3883	C57BL/6J	± kb
transcript	ENSMUST00000113822	Ensembl \| MGI Sequence Detail	2918	Not Applicable
polypeptide	ENSMUSP00000109453	Ensembl \| MGI Sequence Detail	636	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000029610 leucine-rich repeat and fibronectin type-III domain-containing protein 4

(term hierarchy)
PDB

6TL8
InterPro Domains

IPR000483 Cysteine-rich flanking region, C-terminal

IPR003961 Fibronectin type III

IPR036116 Fibronectin type III superfamily

IPR013098 Immunoglobulin I-set

IPR007110 Immunoglobulin-like domain

IPR036179 Immunoglobulin-like domain superfamily

IPR013783 Immunoglobulin-like fold

IPR003599 Immunoglobulin subtype

IPR003598 Immunoglobulin subtype 2

IPR001611 Leucine-rich repeat

IPR050467 Leucine-rich repeat and fibronectin type-III domain-containing

IPR032675 Leucine-rich repeat domain superfamily

IPR003591 Leucine-rich repeat, typical subtype
GlyGen

Q80XU8 6 sites, 4 N-linked glycans (4 sites)

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All nucleic 53

cDNA 50

Primer pair 1

Other 2

Microarray probesets 3

Summaries

All 34

Developmental Gene Expression 6

Gene Ontology 5

Phenotypes 5
Earliest

J:82808 Strausberg RL, et al., Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903
Latest

J:313619 Bedogni F, et al., Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Front Mol Neurosci. 2021;14:686034

TSS for Lrfn4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr157505	Chr19:4665675-4665728 (-)	-7 bp
Tssr157504	Chr19:4665546-4665567 (-)	138 bp
Tssr157503	Chr19:4665481-4665540 (-)	184 bp
Tssr157502	Chr19:4665173-4665227 (-)	495 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)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 12/10/2024 MGI 6.24