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    Lrch3 leucine-rich repeats and calponin homology (CH) domain containing 3 [ Mus musculus (house mouse) ]

    Gene ID: 70144, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Lrch3provided by MGI
    Official Full Name
    leucine-rich repeats and calponin homology (CH) domain containing 3provided by MGI
    Primary source
    MGI:MGI:1917394
    See related
    Ensembl:ENSMUSG00000022801 AllianceGenome:MGI:1917394
    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
    Gm1742; 2210409B11Rik
    Summary
    Predicted to be involved in septin cytoskeleton organization. Predicted to be located in cytoplasm. Predicted to be active in cytosol. Orthologous to human LRCH3 (leucine rich repeats and calponin homology domain containing 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 16.0), CNS E11.5 (RPKM 15.6) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Lrch3 in Genome Data Viewer
    Location:
    16 B3; 16 23.46 cM
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (32734452..32836399)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (32914083..33016029)

    Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_40675 Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:32813070-32813253 Neighboring gene STARR-seq mESC enhancer starr_40677 Neighboring gene STARR-seq mESC enhancer starr_40678 Neighboring gene somatomedin B domain containing 1 Neighboring gene VISTA enhancer mm1352 Neighboring gene RUN domain and cysteine-rich domain containing, Beclin 1-interacting protein Neighboring gene STARR-positive B cell enhancer mm9_chr16:32877901-32878201 Neighboring gene forty-two-three domain containing 1 Neighboring gene STARR-positive B cell enhancer ABC_E9930 Neighboring gene STARR-positive B cell enhancer ABC_E8627 Neighboring gene STARR-positive B cell enhancer ABC_E4167 Neighboring gene predicted gene 6611 Neighboring gene STARR-seq mESC enhancer starr_40679 Neighboring gene STARR-positive B cell enhancer ABC_E8628 Neighboring gene nuclear encoded rRNA 5S 33 Neighboring gene IQ motif containing G Neighboring gene STARR-positive B cell enhancer ABC_E2460 Neighboring gene ribosomal protein L35A Neighboring gene leishmanolysin-like (metallopeptidase M8 family) Neighboring gene microRNA 1947

    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 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. Tissue expression patterns identify mouse cilia genes. McClintock TS, et al. Physiol Genomics, 2008 Jan 17. PMID 17971504
    2. Identification of 14-3-3epsilon substrates from embryonic murine brain. Ballif BA, et al. J Proteome Res, 2006 Sep. PMID 16944949
    3. ATG5 is required for B cell polarization and presentation of particulate antigens. Arbogast F, et al. Autophagy, 2019 Feb. PMID 30196744, Free PMC Article
    4. KCTD13-mediated ubiquitination and degradation of GluN1 regulates excitatory synaptic transmission and seizure susceptibility. Gu J, et al. Cell Death Differ, 2023 Jul. PMID 37142655, Free PMC Article
    5. BioID screening of biotinylation sites using the avidin-like protein Tamavidin 2-REV identifies global interactors of stimulator of interferon genes (STING). Motani K, et al. J Biol Chem, 2020 Aug 7. PMID 32554809, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in septin cytoskeleton organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in septin cytoskeleton organization ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    DISP complex protein LRCH3
    Names
    leucine-rich repeat and calponin homology domain-containing protein 3

    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_001081255.1 → NP_001074724.1  DISP complex protein LRCH3 isoform 1

      See identical proteins and their annotated locations for NP_001074724.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the predominant transcript and encodes isoform 1.
      Source sequence(s)
      AC126023, AC139244
      Consensus CDS
      CCDS37315.1
      UniProtKB/Swiss-Prot
      B2RXA0, Q3U222, Q3UZ74, Q8BVU0
      UniProtKB/TrEMBL
      E9Q892
      Related
      ENSMUSP00000023491.7, ENSMUST00000023491.13
      Conserved Domains (4) summary
      smart00033
      Location:653 → 727
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    2. NM_001310672.1 → NP_001297601.1  DISP complex protein LRCH3 isoform 2

      See identical proteins and their annotated locations for NP_001297601.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an in-frame coding exon in the 3' region compared to variant 1. The resulting isoform (2) is shorter missing an internal protein segment compared to isoform 1.
      Source sequence(s)
      AC126023, AC139244, BC157924
      Consensus CDS
      CCDS79450.1
      UniProtKB/TrEMBL
      B2RXP1
      Related
      ENSMUSP00000126964.2, ENSMUST00000170201.8
      Conserved Domains (4) summary
      smart00033
      Location:617 → 691
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    3. NM_001310673.1 → NP_001297602.1  DISP complex protein LRCH3 isoform 3

      See identical proteins and their annotated locations for NP_001297602.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two in-frame coding exons in the 3' region compared to variant 1. The resulting isoform (3) is shorter missing two internal protein segments compared to isoform 1.
      Source sequence(s)
      AC126023, AC139244, BC172144
      Consensus CDS
      CCDS79451.1
      UniProtKB/TrEMBL
      B7ZWM8
      Related
      ENSMUSP00000127547.2, ENSMUST00000170899.8
      Conserved Domains (3) summary
      smart00033
      Location:567 → 641
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    4. NM_001310674.1 → NP_001297603.1  DISP complex protein LRCH3 isoform 4

      See identical proteins and their annotated locations for NP_001297603.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) contains an additional exon at the 3' end compared to variant 1, which results in a frame-shift and a longer isoform (4) with a distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AC126023, AC139244, BC151058, CN526554
      Consensus CDS
      CCDS84225.1
      UniProtKB/TrEMBL
      E9QAU9
      Related
      ENSMUSP00000130708.2, ENSMUST00000135193.9
      Conserved Domains (4) summary
      smart00033
      Location:653 → 755
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    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_000082.7 Reference GRCm39 C57BL/6J

      Range
      32734452..32836399
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030249271.2 → XP_030105131.1  DISP complex protein LRCH3 isoform X15

      Conserved Domains (3) summary
      smart00033
      Location:567 → 669
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    2. XM_036160113.1 → XP_036016006.1  DISP complex protein LRCH3 isoform X14

      Conserved Domains (4) summary
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]
      cd21272
      Location:596 → 704
      CH_LRCH3; calponin homology (CH) domain found in leucine-rich repeat and calponin homology domain-containing protein 3

    3. XM_036160114.1 → XP_036016007.1  DISP complex protein LRCH3 isoform X17

      Conserved Domains (3) summary
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]
      cd21272
      Location:546 → 654
      CH_LRCH3; calponin homology (CH) domain found in leucine-rich repeat and calponin homology domain-containing protein 3

    4. XM_006522528.4 → XP_006522591.1  DISP complex protein LRCH3 isoform X6

      Conserved Domains (4) summary
      smart00033
      Location:617 → 719
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    5. XM_006522525.4 → XP_006522588.1  DISP complex protein LRCH3 isoform X2

      Conserved Domains (4) summary
      smart00033
      Location:652 → 754
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    6. XM_006522530.4 → XP_006522593.1  DISP complex protein LRCH3 isoform X8

      Conserved Domains (3) summary
      smart00033
      Location:603 → 705
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    7. XM_006522531.4 → XP_006522594.1  DISP complex protein LRCH3 isoform X9

      Conserved Domains (3) summary
      smart00033
      Location:602 → 704
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    8. XM_006522526.5 → XP_006522589.1  DISP complex protein LRCH3 isoform X3

      Conserved Domains (4) summary
      smart00033
      Location:635 → 737
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    9. XM_036160111.1 → XP_036016004.1  DISP complex protein LRCH3 isoform X10

      Conserved Domains (4) summary
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:593 → 702
      CH_SF; calponin homology (CH) domain superfamily

    10. XM_030249269.2 → XP_030105129.1  DISP complex protein LRCH3 isoform X7

      Conserved Domains (4) summary
      smart00033
      Location:616 → 718
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    11. XM_006522527.5 → XP_006522590.1  DISP complex protein LRCH3 isoform X5

      Conserved Domains (4) summary
      smart00033
      Location:634 → 736
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    12. XM_006522533.5 → XP_006522596.1  DISP complex protein LRCH3 isoform X13

      Conserved Domains (3) summary
      smart00033
      Location:585 → 687
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    13. XM_030249272.2 → XP_030105132.1  DISP complex protein LRCH3 isoform X16

      Conserved Domains (3) summary
      smart00033
      Location:549 → 651
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    14. XM_030249268.2 → XP_030105128.1  DISP complex protein LRCH3 isoform X4

      UniProtKB/TrEMBL
      E9Q892
      Conserved Domains (4) summary
      smart00033
      Location:652 → 726
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    15. XM_036160112.1 → XP_036016005.1  DISP complex protein LRCH3 isoform X11

      Conserved Domains (4) summary
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]
      cd21272
      Location:613 → 721
      CH_LRCH3; calponin homology (CH) domain found in leucine-rich repeat and calponin homology domain-containing protein 3

    16. XM_030249270.2 → XP_030105130.1  DISP complex protein LRCH3 isoform X12

      Conserved Domains (3) summary
      smart00033
      Location:603 → 677
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    17. XM_006522524.5 → XP_006522587.1  DISP complex protein LRCH3 isoform X1

      See identical proteins and their annotated locations for XP_006522587.1

      UniProtKB/TrEMBL
      E9QAU9
      Conserved Domains (4) summary
      smart00033
      Location:653 → 755
      CH; Calponin homology domain
      COG4886
      Location:77 → 285
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      COG5022
      Location:329 → 501
      COG5022; Myosin heavy chain [General function prediction only]
      sd00033
      Location:61 → 83
      LRR_RI; leucine-rich repeat [structural motif]

    RNA

    1. XR_001781866.3 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BVU0.3 GenPept UniProtKB/Swiss-Prot:Q8BVU0

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