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

Gene ID: 70144, updated on 5-Mar-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, Apr 2022]
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
  • 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. 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
  5. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article

See all (17) 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
  
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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