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

Gene ID: 231798, updated on 5-Mar-2024

Summary

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
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Genomic context

See Lrch4 in Genome Data Viewer
Location:
5 G2; 5 76.59 cM
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 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 STARR-positive B cell enhancer ABC_E72 Neighboring gene STARR-seq mESC enhancer starr_14649 Neighboring gene predicted gene 20605 Neighboring gene sin3 associated polypeptide Neighboring gene insulin receptor substrate 3

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General protein information

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_001168652.1NP_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
    Q8C2M4
    Related
    ENSMUSP00000135832.2, ENSMUST00000176667.8
    Conserved Domains (5) summary
    cd00116
    Location:103245
    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:4669
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00307
    Location:532627
    CH; Calponin homology (CH) domain
    pfam12799
    Location:92131
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:138194
    LRR_8; Leucine rich repeat
  2. NM_146164.2NP_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
    H3BLL3, Q921G6
    UniProtKB/TrEMBL
    Q8C2M4
    Related
    ENSMUSP00000031734.10, ENSMUST00000031734.16
    Conserved Domains (6) summary
    cd00116
    Location:103245
    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:4669
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00307
    Location:532624
    CH; Calponin homology (CH) domain
    pfam02377
    Location:265405
    Dishevelled; Dishevelled specific domain
    pfam12799
    Location:92131
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:138194
    LRR_8; Leucine rich repeat

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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)