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Lrrc1 leucine rich repeat containing 1 [ Mus musculus (house mouse) ]

Gene ID: 214345, updated on 11-Apr-2024

Summary

Official Symbol
Lrrc1provided by MGI
Official Full Name
leucine rich repeat containing 1provided by MGI
Primary source
MGI:MGI:2442313
See related
Ensembl:ENSMUSG00000032352 AllianceGenome:MGI:2442313
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
mKIAA4018; D030059I21; A430093J20Rik
Summary
Predicted to be located in cytosol. Orthologous to human LRRC1 (leucine rich repeat containing 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis adult (RPKM 34.3), large intestine adult (RPKM 18.7) and 23 other tissues See more
Orthologs
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Genomic context

See Lrrc1 in Genome Data Viewer
Location:
9 D; 9 43.36 cM
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (77338103..77453749, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (77430821..77546464, complement)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene muscular LMNA-interacting protein Neighboring gene predicted gene, 53504 Neighboring gene RIKEN cDNA 5730403I07 gene Neighboring gene STARR-positive B cell enhancer mm9_chr9:77234587-77234888 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:77317674-77317857 Neighboring gene STARR-seq mESC enhancer starr_24696 Neighboring gene STARR-seq mESC enhancer starr_24697 Neighboring gene STARR-seq mESC enhancer starr_24699 Neighboring gene STARR-positive B cell enhancer mm9_chr9:77398917-77399217 Neighboring gene STARR-seq mESC enhancer starr_24700 Neighboring gene chimerin (chimaerin) 1 pseudogene Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:77440338-77440521 Neighboring gene STARR-positive B cell enhancer ABC_E2905 Neighboring gene STARR-seq mESC enhancer starr_24701 Neighboring gene STARR-seq mESC enhancer starr_24702 Neighboring gene STARR-positive B cell enhancer ABC_E6770 Neighboring gene kelch-like 31

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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • KIAA4018, MGC90936

Gene Ontology Provided by MGI

Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
leucine-rich repeat-containing protein 1

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_001146048.1NP_001139520.1  leucine-rich repeat-containing protein 1 isoform 1

    See identical proteins and their annotated locations for NP_001139520.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK220166
    Consensus CDS
    CCDS72282.1
    UniProtKB/Swiss-Prot
    Q3UI50, Q80VQ1, Q8BKR1, Q8BUS9
    UniProtKB/TrEMBL
    Q571M3
    Related
    ENSMUSP00000139226.2, ENSMUST00000183873.8
    Conserved Domains (2) summary
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:3694
    LRR_8; Leucine rich repeat
  2. NM_172528.3NP_766116.3  leucine-rich repeat-containing protein 1 isoform 2

    See identical proteins and their annotated locations for NP_766116.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has an alternate exon at the 5' end and uses a different start codon, compared to variant 1. These differences result in an isoform (2) with a shorter and distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    AK082721, AK220166
    Consensus CDS
    CCDS52862.1
    UniProtKB/TrEMBL
    G3X9W3
    Related
    ENSMUSP00000109048.3, ENSMUST00000113421.10
    Conserved Domains (2) summary
    sd00033
    Location:1638
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:84141
    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_000075.7 Reference GRCm39 C57BL/6J

    Range
    77338103..77453749 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030244218.2XP_030100078.1  leucine-rich repeat-containing protein 1 isoform X1

    Conserved Domains (3) summary
    COG4886
    Location:146446
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    PRK12323
    Location:4158
    PRK12323; DNA polymerase III subunit gamma/tau
    sd00033
    Location:163185
    LRR_RI; leucine-rich repeat [structural motif]
  2. XM_036154820.1XP_036010713.1  leucine-rich repeat-containing protein 1 isoform X2

    Conserved Domains (2) summary
    PRK15370
    Location:36270
    PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
    sd00033
    Location:325
    LRR_RI; leucine-rich repeat [structural motif]