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    Lrch3 leucine rich repeats and calponin homology domain containing 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 303883, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Lrch3provided by RGD
    Official Full Name
    leucine rich repeats and calponin homology domain containing 3provided by RGD
    Primary source
    RGD:1306200
    See related
    Ensembl:ENSRNOG00000001774 AllianceGenome:RGD:1306200
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to be involved in septin cytoskeleton organization. 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
    Biased expression in Lung (RPKM 159.4), Thymus (RPKM 143.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lrch3 in Genome Data Viewer
    Location:
    11q22
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (81277581..81377339, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (67772499..67872269, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (71008950..71108229, complement)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L35A Neighboring gene IQ motif containing G Neighboring gene uncharacterized LOC134481085 Neighboring gene forty-two-three domain containing 1 Neighboring gene rubicon autophagy regulator

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The MYO6 interactome reveals adaptor complexes coordinating early endosome and cytoskeletal dynamics. O'Loughlin T, et al. EMBO Rep, 2018 Apr. PMID 29467281, Free PMC Article
    2. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in septin cytoskeleton organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytosol 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

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    Preferred Names
    DISP complex protein LRCH3
    Names
    leucine-rich repeat and calponin homology domain-containing protein 3
    leucine-rich repeats and calponin homology (CH) domain containing 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_001371837.2 → NP_001358766.2  DISP complex protein LRCH3 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A8I5ZJI0, A0A8I6AN41, A6IRN0
      Related
      ENSRNOP00000077497.1, ENSRNOT00000096046.1
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cd21272
      Location:645 → 753
      CH_LRCH3; calponin homology (CH) domain found in leucine-rich repeat and calponin homology domain-containing protein 3

    2. NM_001371838.2 → NP_001358767.2  DISP complex protein LRCH3 2

      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)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A8I6AH73, A0A8I6AN41
      Related
      ENSRNOP00000092260.1, ENSRNOT00000096328.1
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cd21272
      Location:609 → 717
      CH_LRCH3; calponin homology (CH) domain found in leucine-rich repeat and calponin homology domain-containing protein 3

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086029.1 Reference GRCr8

      Range
      81277581..81377339 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063270511.1 → XP_063126581.1  DISP complex protein LRCH3 isoform X15

      UniProtKB/TrEMBL
      A0A8I6AN41

    2. XM_063270510.1 → XP_063126580.1  DISP complex protein LRCH3 isoform X14

      UniProtKB/TrEMBL
      A0A8I6AN41, D4A8M4

    3. XM_039088336.2 → XP_038944264.1  DISP complex protein LRCH3 isoform X16

      UniProtKB/TrEMBL
      A0A8I6AN41
      Related
      ENSRNOP00000097063.1
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cd21272
      Location:559 → 667
      CH_LRCH3; calponin homology (CH) domain found in leucine-rich repeat and calponin homology domain-containing protein 3

    4. XM_063270508.1 → XP_063126578.1  DISP complex protein LRCH3 isoform X11

      UniProtKB/TrEMBL
      A0A8I6AN41, A6IRM9

    5. XM_063270509.1 → XP_063126579.1  DISP complex protein LRCH3 isoform X12

      UniProtKB/TrEMBL
      A0A8I6AN41

    6. XM_063270506.1 → XP_063126576.1  DISP complex protein LRCH3 isoform X6

      UniProtKB/TrEMBL
      A0A8I6AN41

    7. XM_039088337.2 → XP_038944265.1  DISP complex protein LRCH3 isoform X17

      UniProtKB/TrEMBL
      A0A8I6AN41
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:521 → 630
      CH_SF; calponin homology (CH) domain superfamily

    8. XM_063270507.1 → XP_063126577.1  DISP complex protein LRCH3 isoform X10

      UniProtKB/TrEMBL
      A0A8I6AN41

    9. XM_039088328.2 → XP_038944256.1  DISP complex protein LRCH3 isoform X4

      UniProtKB/TrEMBL
      A0A8I6AN41
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:607 → 716
      CH_SF; calponin homology (CH) domain superfamily

    10. XM_039088325.2 → XP_038944253.1  DISP complex protein LRCH3 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AN41
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:625 → 734
      CH_SF; calponin homology (CH) domain superfamily

    11. XM_039088332.2 → XP_038944260.1  DISP complex protein LRCH3 isoform X8

      UniProtKB/TrEMBL
      A0A8I6AN41
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:588 → 697
      CH_SF; calponin homology (CH) domain superfamily

    12. XM_039088326.2 → XP_038944254.1  DISP complex protein LRCH3 isoform X3

      UniProtKB/TrEMBL
      A0A8I6AN41
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:624 → 733
      CH_SF; calponin homology (CH) domain superfamily

    13. XM_039088329.2 → XP_038944257.1  DISP complex protein LRCH3 isoform X5

      UniProtKB/TrEMBL
      A0A8I6AN41
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:606 → 715
      CH_SF; calponin homology (CH) domain superfamily

    14. XM_039088324.2 → XP_038944252.1  DISP complex protein LRCH3 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AN41, M0R9W9
      Related
      ENSRNOP00000066301.2
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:642 → 751
      CH_SF; calponin homology (CH) domain superfamily

    15. XM_039088335.2 → XP_038944263.1  DISP complex protein LRCH3 isoform X13

      UniProtKB/TrEMBL
      A0A8I6AN41
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:557 → 666
      CH_SF; calponin homology (CH) domain superfamily

    16. XM_039088334.2 → XP_038944262.1  DISP complex protein LRCH3 isoform X9

      UniProtKB/TrEMBL
      A0A8I6AN41
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:574 → 683
      CH_SF; calponin homology (CH) domain superfamily

    17. XM_039088330.2 → XP_038944258.1  DISP complex protein LRCH3 isoform X7

      UniProtKB/TrEMBL
      A0A8I6AN41, D3ZWD1
      Related
      ENSRNOP00000063876.3
      Conserved Domains (3) summary
      COG4886
      Location:73 → 281
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:57 → 79
      LRR_RI; leucine-rich repeat [structural motif]
      cl00030
      Location:592 → 701
      CH_SF; calponin homology (CH) domain superfamily

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001107088.1: Suppressed sequence

      Description
      NM_001107088.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: LRCH3 (GeneID:84859).
    Nucleotide Protein Strain
    Heading Accession and Version

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