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Lrrc49 leucine rich repeat containing 49 [ Mus musculus (house mouse) ]

Gene ID: 102747, updated on 2-Nov-2024

Summary

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Official Symbol
Lrrc49provided by MGI
Official Full Name
leucine rich repeat containing 49provided by MGI
Primary source
MGI:MGI:2442689
See related
Ensembl:ENSMUSG00000047766 AllianceGenome:MGI:2442689
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
p79; PGs4; D430025H09Rik
Summary
Predicted to be located in centriolar satellite. Is expressed in several structures, including alimentary system; brain; cardiovascular system; genitourinary system; and retina nuclear layer. Orthologous to human LRRC49 (leucine rich repeat containing 49). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in cerebellum adult (RPKM 22.0), CNS E14 (RPKM 16.6) and 13 other tissues See more
Orthologs
human all
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Genomic context

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See Lrrc49 in Genome Data Viewer
Location:
9 B; 9 32.75 cM
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (60494507..60595460, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (60587224..60688167, complement)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 9230112J17 gene Neighboring gene STARR-seq mESC enhancer starr_24321 Neighboring gene predicted gene, 51679 Neighboring gene STARR-seq mESC enhancer starr_24322 Neighboring gene annexin A7 pseudogene Neighboring gene STARR-seq mESC enhancer starr_24323 Neighboring gene La ribonucleoprotein 6, translational regulator Neighboring gene STARR-seq mESC enhancer starr_24324 Neighboring gene RIKEN cDNA 1700036A12 gene

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. Reduced circ_lrrc49 in trigeminal ganglion contributes to neuropathic pain in mice by downregulating Ist1 and impairing autophagy. Tang Q, et al. J Neurochem, 2024 Jul. PMID 38348636
  2. Tubulin polyglutamylase enzymes are members of the TTL domain protein family. Janke C, et al. Science, 2005 Jun 17. PMID 15890843
  3. Cracking the egg: molecular dynamics and evolutionary aspects of the transition from the fully grown oocyte to embryo. Evsikov AV, et al. Genes Dev, 2006 Oct 1. PMID 17015433, Free PMC Article
  4. Genomic analysis of mouse retinal development. Blackshaw S, et al. PLoS Biol, 2004 Sep. PMID 15226823, Free PMC Article
  5. 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

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Reduced circ_lrrc49 in trigeminal ganglion contributes to neuropathic pain in mice by downregulating Ist1 and impairing autophagy.
    Title: Reduced circ_lrrc49 in trigeminal ganglion contributes to neuropathic pain in mice by downregulating Ist1 and impairing autophagy.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2) 

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
  
Component Evidence Code Pubs
located_in centriolar satellite IEA
Inferred from Electronic Annotation
more info
  
located_in centriolar satellite ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in microtubule IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
leucine-rich repeat-containing protein 49
Names
tubulin polyglutamylase complex subunit 4

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_001146046.1 → NP_001139518.1  leucine-rich repeat-containing protein 49 isoform 1

    See identical proteins and their annotated locations for NP_001139518.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) lacks an in-frame exon in the 5' coding region, compared to variant 2, and encodes a protein (isoform 1) with a shorter N-terminus, compared to isoform 2.
    Source sequence(s)
    AK041627, AK049268, AK051325, AW050057, CF737193, DV658343
    Consensus CDS
    CCDS52822.1
    UniProtKB/Swiss-Prot
    Q8C3S4, Q8C7T7, Q91YK0
    UniProtKB/TrEMBL
    G5E8R5
    Related
    ENSMUSP00000109668.3, ENSMUST00000114034.9
    Conserved Domains (3) summary
    sd00033
    Location:114 → 135
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:156 → 198
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:202 → 256
    LRR_8; Leucine rich repeat

  2. NM_001146047.1 → NP_001139519.1  leucine-rich repeat-containing protein 49 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has an alternate exon at its 5' end and uses a novel start codon, compared to variant 2. This difference results in a protein (isoform 3) with a shorter and distinct N-terminus, compared to isoform 2.
    Source sequence(s)
    AK049268, AK051325, AW050057, DV658343
    Consensus CDS
    CCDS52821.1
    UniProtKB/Swiss-Prot
    Q8C3S4, Q8C7T7, Q91YK0
    UniProtKB/TrEMBL
    E9Q8C9
    Related
    ENSMUSP00000128842.2, ENSMUST00000166168.8
    Conserved Domains (3) summary
    sd00033
    Location:174 → 195
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:216 → 258
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:262 → 316
    LRR_8; Leucine rich repeat

  3. NM_001311095.1 → NP_001298024.1  leucine-rich repeat-containing protein 49 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, uses an alternate translation initiation codon, and lacks an alternate in-frame exon in the 5' coding region compared to variant 2. It encodes isoform 4, which is shorter than and has a distinct N-terminus compared to isoform 2.
    Source sequence(s)
    AC127370, AK051325, AK085022, BG143842
    Consensus CDS
    CCDS81016.1
    UniProtKB/Swiss-Prot
    Q8C3S4, Q8C7T7, Q91YK0
    UniProtKB/TrEMBL
    D3YWN5
    Related
    ENSMUSP00000109666.2, ENSMUST00000114032.8
    Conserved Domains (3) summary
    sd00033
    Location:108 → 129
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:150 → 192
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:196 → 250
    LRR_8; Leucine rich repeat

  4. NM_145616.4 → NP_663591.3  leucine-rich repeat-containing protein 49 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) represents the longest transcript and encodes the longest isoform (2).
    Source sequence(s)
    AK049268, AK051325, AW050057, CF737193, DV658343
    Consensus CDS
    CCDS23257.1
    UniProtKB/Swiss-Prot
    Q8C3S4, Q8C7T7, Q91YK0
    UniProtKB/TrEMBL
    E9QM16
    Related
    ENSMUSP00000070606.6, ENSMUST00000065603.12
    Conserved Domains (3) summary
    sd00033
    Location:180 → 201
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:222 → 264
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:268 → 322
    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
    60494507..60595460 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006510753.4 → XP_006510816.1  leucine-rich repeat-containing protein 49 isoform X1

    See identical proteins and their annotated locations for XP_006510816.1

    UniProtKB/Swiss-Prot
    Q91YK0

  2. XM_030243994.2 → XP_030099854.1  leucine-rich repeat-containing protein 49 isoform X2

    UniProtKB/TrEMBL
    D3YUD9

  3. XM_030243990.2 → XP_030099850.1  leucine-rich repeat-containing protein 49 isoform X1

  4. XM_030243986.2 → XP_030099846.1  leucine-rich repeat-containing protein 49 isoform X1

  5. XM_017313093.3 → XP_017168582.1  leucine-rich repeat-containing protein 49 isoform X2

    UniProtKB/TrEMBL
    D3YUD9

  6. XM_017313092.3 → XP_017168581.1  leucine-rich repeat-containing protein 49 isoform X1

    UniProtKB/Swiss-Prot
    Q91YK0

  7. XM_006510754.5 → XP_006510817.1  leucine-rich repeat-containing protein 49 isoform X2

    UniProtKB/TrEMBL
    D3YUD9

  8. XM_030243987.2 → XP_030099847.1  leucine-rich repeat-containing protein 49 isoform X1

  9. XM_036154542.1 → XP_036010435.1  leucine-rich repeat-containing protein 49 isoform X2

    UniProtKB/TrEMBL
    D3YUD9

  10. XM_036154539.1 → XP_036010432.1  leucine-rich repeat-containing protein 49 isoform X2

    UniProtKB/TrEMBL
    D3YUD9

  11. XM_030243993.2 → XP_030099853.1  leucine-rich repeat-containing protein 49 isoform X2

    UniProtKB/TrEMBL
    D3YUD9

  12. XM_030243989.2 → XP_030099849.1  leucine-rich repeat-containing protein 49 isoform X1

  13. XM_036154541.1 → XP_036010434.1  leucine-rich repeat-containing protein 49 isoform X2

    UniProtKB/TrEMBL
    D3YUD9
    Related
    ENSMUSP00000057014.8, ENSMUST00000053171.14

  14. XM_030243988.2 → XP_030099848.1  leucine-rich repeat-containing protein 49 isoform X1

  15. XM_030243995.2 → XP_030099855.1  leucine-rich repeat-containing protein 49 isoform X2

    UniProtKB/TrEMBL
    D3YUD9

  16. XM_030243991.2 → XP_030099851.1  leucine-rich repeat-containing protein 49 isoform X1

  17. XM_030243992.2 → XP_030099852.1  leucine-rich repeat-containing protein 49 isoform X2

    UniProtKB/TrEMBL
    D3YUD9
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q91YK0.1 GenPept UniProtKB/Swiss-Prot:Q91YK0

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