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Lrch4 leucine-rich repeats and calponin homology (CH) domain containing 4 [ Mus musculus (house mouse) ]

Gene ID: 231798, updated on 26-Sep-2022

Summary

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Official Symbol
Lrch4provided by MGI
Official Full Name
leucine-rich repeats and calponin homology (CH) domain containing 4provided by MGI
Primary source
MGI:MGI:1917193
See related
Ensembl:ENSMUSG00000093445 AllianceGenome:MGI:1917193
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
LRN; LRRN4; SAP25; 2810008P14Rik; 2900069C24Rik
Summary
Acts upstream of or within negative regulation of transcription, DNA-templated. Located in PML body and cytoplasm. Orthologous to human LRCH4 (leucine rich repeats and calponin homology domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in thymus adult (RPKM 109.4), spleen adult (RPKM 73.9) and 25 other tissues See more
Orthologs
human all
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Genomic context

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See Lrch4 in Genome Data Viewer
Location:
5; 5 G2
Exon count:
18
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (137627385..137639361)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (137629123..137641099)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 36266 Neighboring gene F-box protein 24 Neighboring gene ubiquinol-cytochrome c reductase binding protein pseudogene Neighboring gene predicted gene 20605 Neighboring gene sin3 associated polypeptide Neighboring gene insulin receptor substrate 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Leucine-rich repeats and calponin homology containing 4 (Lrch4) regulates the innate immune response. Aloor JJ, et al. J Biol Chem, 2019 Feb 8. PMID 30523158, Free PMC Article
  2. Molecular cloning of a mouse submaxillary gland renin cDNA fragment. Rougeon F, et al. Proc Natl Acad Sci U S A, 1981 Oct. PMID 6171818, Free PMC Article
  3. Identification and characterization of SAP25, a novel component of the mSin3 corepressor complex. Shiio Y, et al. Mol Cell Biol, 2006 Feb. PMID 16449650, Free PMC Article
  4. The LMO2 oncogene regulates DNA replication in hematopoietic cells. Sincennes MC, et al. Proc Natl Acad Sci U S A, 2016 Feb 2. PMID 26764384, Free PMC Article
  5. Prediction of the coding sequences of mouse homologues of FLJ genes: the complete nucleotide sequences of 110 mouse FLJ-homologous cDnas identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Apr 30. PMID 15449545

See all (27) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. identify Lrch4 as a broad-spanning regulator of the innate immune response
    Title: Leucine-rich repeats and calponin homology containing 4 (Lrch4) regulates the innate immune response.
  2. SAP25 is a novel core component of the Sin3 corepressor complex whose subcellular location is regulated by PML.
    Title: Identification and characterization of SAP25, a novel component of the mSin3 corepressor complex.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Readthrough Gm20605

Readthrough gene: Gm20605, Included gene: Sap25

Homology

Clone Names

  • MGC19364

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within negative regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in PML body IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
located_in PML body IDA
Inferred from Direct Assay
more info
 PubMed 
located_in PML body ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
leucine-rich repeat and calponin homology domain-containing protein 4
Names
leucine rich repeat protein 4, neuronal

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001168652.1 → NP_001162123.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal segment in the 3' region, as compared to variant 1. The resulting isoform (2) is shorter and has a different C-terminus, as compared to isoform 1.
    Source sequence(s)
    BQ924416, BY204138, CA323124, CF729493, CN702489, DV661712
    Consensus CDS
    CCDS57392.1
    UniProtKB/TrEMBL
    H3BLL3
    Related
    ENSMUSP00000135832.2, ENSMUST00000176667.8
    Conserved Domains (5) summary
    cd00116
    Location:103 → 245
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:46 → 69
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00307
    Location:532 → 627
    CH; Calponin homology (CH) domain
    pfam12799
    Location:92 → 131
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:138 → 194
    LRR_8; Leucine rich repeat

  2. NM_146164.2 → NP_666276.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform 1

    See identical proteins and their annotated locations for NP_666276.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC124730, BQ924416, BY204138, CF729493, CN702489, CV783140, DV650548, DV661712
    Consensus CDS
    CCDS19772.1
    UniProtKB/Swiss-Prot
    Q921G6
    Related
    ENSMUSP00000031734.10, ENSMUST00000031734.16
    Conserved Domains (6) summary
    cd00116
    Location:103 → 245
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:46 → 69
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00307
    Location:532 → 624
    CH; Calponin homology (CH) domain
    pfam02377
    Location:265 → 405
    Dishevelled; Dishevelled specific domain
    pfam12799
    Location:92 → 131
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:138 → 194
    LRR_8; Leucine rich repeat

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    137627385..137639361
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q921G6.1 GenPept UniProtKB/Swiss-Prot:Q921G6

Gene LinkOut

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