Lrit3 MGI Mouse Gene Detail - MGI:2685267 - leucine-rich repeat, immunoglobulin-like and transmembrane domains 3

Symbol

Lrit3
Name

leucine-rich repeat, immunoglobulin-like and transmembrane domains 3
Synonyms

LOC242235

Feature Type

protein coding gene
IDs

MGI:2685267
NCBI Gene: 242235
Alliance

gene page
Transcription Start Sites

3 TSS

Sequence Map

Chr3:129581530-129597679 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 3, 58.99 cM
Mapping Data

1 experiment

SNPs within 2kb

243 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2685267	protein coding gene	Chr3:129577590-129597785 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0027872	protein coding gene	Chr3:132468628-132485055 (-)
A/J	MGP_AJ_G0027830	protein coding gene	Chr3:127858355-127874445 (-)
AKR/J	MGP_AKRJ_G0027795	protein coding gene	Chr3:131169431-131185816 (-)
BALB/cJ	MGP_BALBcJ_G0027843	protein coding gene	Chr3:127698985-127715617 (-)
C3H/HeJ	MGP_C3HHeJ_G0027572	protein coding gene	Chr3:131562696-131581033 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0028287	protein coding gene	Chr3:137201341-137217433 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0025625	protein coding gene	Chr3:123383085-123399908 (-)
CAST/EiJ	MGP_CASTEiJ_G0027029	protein coding gene	Chr3:131241073-131258109 (-)
CBA/J	MGP_CBAJ_G0027548	protein coding gene	Chr3:141813811-141829935 (-)
DBA/2J	MGP_DBA2J_G0027689	protein coding gene	Chr3:127049609-127065770 (-)
FVB/NJ	MGP_FVBNJ_G0027656	protein coding gene	Chr3:124636522-124652934 (-)
LP/J	MGP_LPJ_G0027798	protein coding gene	Chr3:133974143-133991720 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0027687	protein coding gene	Chr3:149773828-149790109 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0028344	protein coding gene	Chr3:130843469-130859666 (-)
PWK/PhJ	MGP_PWKPhJ_G0026753	protein coding gene	Chr3:126785798-126802204 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0026578	protein coding gene	Chr3:128903624-128921535 (-)
WSB/EiJ	MGP_WSBEiJ_G0027108	protein coding gene	Chr3:131555619-131571952 (-)

Human Ortholog

LRIT3, leucine rich repeat, Ig-like and transmembrane domains 3

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

LRIT3, leucine rich repeat, Ig-like and transmembrane domains 3
Synonyms

CSNB1F, FIGLER4
Links

HGNC:24783

NCBI Gene ID: 345193

neXtProt AC: NX_Q3SXY7

UniProt: Q3SXY7
Chr Location

4q25; chr4:109848107-109872315 (+) GRCh38

MGI Vertebrate Homology

Lrit3 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: LRIT3
Gene Tree

Lrit3

Diseases

1 with Lrit3 mouse models; 1 with human LRIT3 associations

Human Disease

Mouse Models

congenital stationary night blindness 1F

IDs

View 1 model

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

16 phenotypes from 3 alleles in 3 genetic backgrounds
14 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

6
Chemically induced (ENU)

1
Chemically induced (other)

1
Endonuclease-mediated

2
Radiation induced

1
Targeted

1
Genomic Mutations

2 involving Lrit3
Incidental Mutations

APF
Find Mice (IMSR)

25 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a targeted allele show a selective absence of the ERG b-wave with a normal a-wave component under scotopic conditions, as well as variable ERG responses with larger a-wave amplitudes, shorter b-wave amplitudes, and longer implicit times of both waves under photopic conditions.

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All GO Annotations

7
GO References

5

Molecular Function

No experimental evidence to support Molecular Function annotation, following literature review. See J:73796.

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	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

719
Tissues

13
cDNA Data

1
Literature Summary

2

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

GEO

Expression Atlas
Other Vertebrate Links

Xenbase lrit3

ZFIN lrit3b

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All Sequences

32
RefSeq

3
UniProt

2
CCDS

CCDS57256.2

Ensembl

ENSMUSG00000093865 (Evidence)
NCBI Gene

242235

			Length	Strain/Species	Flank
genomic	ENSMUSG00000093865	Ensembl Gene Model \| MGI Sequence Detail	16150	C57BL/6J	± kb
transcript	ENSMUST00000185462	Ensembl \| MGI Sequence Detail	2456	Not Applicable
polypeptide	ENSMUSP00000140184	Ensembl \| MGI Sequence Detail	681	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000031067 leucine-rich repeat, immunoglobulin-like domain and transmembrane domain-containing protein 3

(term hierarchy)
InterPro Domains

IPR003961 Fibronectin type III

IPR036116 Fibronectin type III superfamily

IPR007110 Immunoglobulin-like domain

IPR036179 Immunoglobulin-like domain superfamily

IPR013783 Immunoglobulin-like fold

IPR003599 Immunoglobulin subtype

IPR003598 Immunoglobulin subtype 2

IPR001611 Leucine-rich repeat

IPR032675 Leucine-rich repeat domain superfamily

IPR003591 Leucine-rich repeat, typical subtype

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All nucleic 3

cDNA 1

Primer pair 1

Other 1

Microarray probesets 1

Summaries

All 30

Developmental Gene Expression 2

Diseases 2

Gene Ontology 5

Phenotypes 14
Earliest

J:70677 Cook SA, et al., Mouse paracentric inversion In(3)55Rk mutates the urate oxidase gene. Cytogenet Cell Genet. 2001;93(1-2):77-82
Latest

J:332184 Cao Y, et al., Post-developmental plasticity of the primary rod pathway allows restoration of visually guided behaviors. Curr Biol. 2022 Nov 21;32(22):4783-4796.e3

TSS for Lrit3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr35630	Chr3:129597791-129597796 (-)	-115 bp
Tssr35629	Chr3:129597771-129597789 (-)	-101 bp
Tssr35628	Chr3:129597738-129597746 (-)	-63 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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