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

Gene ID: 303883, updated on 3-Apr-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. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

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

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

    UniProtKB/TrEMBL
    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
    A6IRM9

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

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

  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

  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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