Lrif1 MGI Mouse Gene Detail - MGI:2445214 - ligand dependent nuclear receptor interacting factor 1

Symbol

Lrif1
Name

ligand dependent nuclear receptor interacting factor 1
Synonyms

2010012G17Rik, 4933421E11Rik

Feature Type

protein coding gene
IDs

MGI:2445214
NCBI Gene: 321000
Alliance

gene page
Transcription Start Sites

9 TSS

Sequence Map

Chr3:106592303-106643893 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 3, 46.52 cM
Mapping Data

2 experiments

SNPs within 2kb

931 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2445214	protein coding gene	Chr3:106592256-106643893 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0027736	protein coding gene	Chr3:108141185-108195342 (+)
A/J	MGP_AJ_G0027696	protein coding gene	Chr3:104724136-104775506 (+)
AKR/J	MGP_AKRJ_G0027661	protein coding gene	Chr3:107276184-107330014 (+)
BALB/cJ	MGP_BALBcJ_G0027708	protein coding gene	Chr3:104421560-104474736 (+)
C3H/HeJ	MGP_C3HHeJ_G0027438	protein coding gene	Chr3:107612989-107661861 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0028152	protein coding gene	Chr3:112184967-112239265 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0025490	protein coding gene	Chr3:100904307-100950445 (+)
CAST/EiJ	MGP_CASTEiJ_G0026894	protein coding gene	Chr3:106985075-107034573 (+)
CBA/J	MGP_CBAJ_G0027413	protein coding gene	Chr3:115979398-116030100 (+)
DBA/2J	MGP_DBA2J_G0027555	protein coding gene	Chr3:103922304-103972456 (+)
FVB/NJ	MGP_FVBNJ_G0027523	protein coding gene	Chr3:101818917-101867022 (+)
LP/J	MGP_LPJ_G0027662	protein coding gene	Chr3:109532243-109603970 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0027553	protein coding gene	Chr3:122074638-122140899 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0028207	protein coding gene	Chr3:106837568-106889082 (+)
PWK/PhJ	MGP_PWKPhJ_G0026620	protein coding gene	Chr3:103656313-103702537 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0026440	protein coding gene	Chr3:104989469-105040634 (+)
WSB/EiJ	MGP_WSBEiJ_G0026974	protein coding gene	Chr3:107398418-107448107 (+)

Human Ortholog

LRIF1, ligand dependent nuclear receptor interacting factor 1

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

LRIF1, ligand dependent nuclear receptor interacting factor 1
Synonyms

C1orf103, FSHD3, HBiX1, RIF1
Links

HGNC:30299

NCBI Gene ID: 55791

neXtProt AC: NX_Q5T3J3

UniProt: Q5T3J3
Chr Location

1p13.3; chr1:110874957-110963965 (-) GRCh38

MGI Vertebrate Homology

Lrif1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: LRIF1
Gene Tree

Lrif1

Diseases

1 with human LRIF1 associations

				Human Disease	Mouse Models
				facioscapulohumeral muscular dystrophy 3 IDs facioscapulohumeral muscular dystrophy 3 DOID:0060917 OMIM:619477

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

References

1 with disease annotations

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Phenotype Summary

1 phenotype from 1 allele in 1 genetic background
10 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

12
Chemically induced (other)

1
Endonuclease-mediated

2
Gene trapped

8
Radiation induced

1
Genomic Mutations

2 involving Lrif1
Incidental Mutations

APF
Find Mice (IMSR)

32 strains or lines available

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All GO Annotations

14
GO References

6

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

706
cDNA Data

88

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

ZFIN lrif1

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All Sequences

91
RefSeq

24
UniProt

8
CCDS

CCDS17726.1, CCDS17727.1, CCDS38586.1

Ensembl

ENSMUSG00000056260 (Evidence)
NCBI Gene

321000

			Length	Strain/Species	Flank
genomic	ENSMUSG00000056260	Ensembl Gene Model \| MGI Sequence Detail	51591	C57BL/6J	± kb
transcript	ENSMUST00000098750	Ensembl \| MGI Sequence Detail	3103	Not Applicable
polypeptide	ENSMUSP00000096346	Ensembl \| MGI Sequence Detail	755	Not Applicable

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UniProt

8 Sequences
Protein Ontology

PR:000030510 ligand-dependent nuclear receptor-interacting factor 1

(term hierarchy)
InterPro Domains

IPR026191 Ligand-dependent nuclear receptor-interacting factor 1
GlyGen

Q8CDD9 1 site, 1 O-linked glycan (1 site)

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All nucleic 88

cDNA 88

Microarray probesets 5

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MGI:1919314, MGI:2139718

Summaries

All 37

Diseases 1

Gene Ontology 6

Phenotypes 10
Earliest

J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Lrif1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr31131	Chr3:106592259-106592337 (+)	-5 bp
Tssr31132	Chr3:106628988-106629049 (+)	36,716 bp
Tssr31133	Chr3:106629108-106629119 (+)	36,811 bp
Tssr31134	Chr3:106629125-106629138 (+)	36,829 bp
Tssr31135	Chr3:106629169-106629180 (+)	36,872 bp
Tssr31136	Chr3:106629189-106629192 (+)	36,888 bp
Tssr31137	Chr3:106629214-106629270 (+)	36,939 bp
Tssr31138	Chr3:106629448-106629455 (+)	37,149 bp
Tssr31139	Chr3:106629541-106629574 (+)	37,255 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