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Lrrc9 leucine rich repeat containing 9 [ Mus musculus (house mouse) ]

Gene ID: 78257, updated on 2-Nov-2024

Summary

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Official Symbol
Lrrc9provided by MGI
Official Full Name
leucine rich repeat containing 9provided by MGI
Primary source
MGI:MGI:1925507
See related
Ensembl:ENSMUSG00000021090 AllianceGenome:MGI:1925507
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
4921529O18Rik; 4930432K16Rik
Summary
Predicted to be located in cytoplasm. Orthologous to human LRRC9 (leucine rich repeat containing 9). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in testis adult (RPKM 8.9), CNS E18 (RPKM 0.6) and 3 other tissues See more
Orthologs
human all
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Genomic context

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See Lrrc9 in Genome Data Viewer
Location:
12 C3; 12 30.2 cM
Exon count:
35
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (72481391..72561269)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (72434617..72517913)

Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene reticulon 1 Neighboring gene predicted gene, 52013 Neighboring gene STARR-seq mESC enhancer starr_32439 Neighboring gene predicted gene, 33487 Neighboring gene pecanex homolog 4 Neighboring gene STARR-seq mESC enhancer starr_32441 Neighboring gene lymphocyte antigen 6 family member E, pseudogene 1 Neighboring gene dehydrogenase/reductase 7 like 1

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. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article
  2. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
  3. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article
  4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
  5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

See all (10) 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 (1) 

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 biological_process ND
No biological Data available
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
leucine-rich repeat-containing protein 9

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_001142728.1 → NP_001136200.1  leucine-rich repeat-containing protein 9 isoform 1

    See identical proteins and their annotated locations for NP_001136200.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AK029802
    Consensus CDS
    CCDS49085.1
    UniProtKB/Swiss-Prot
    Q8CAD3, Q8CDN9, Q9D2J8
    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Related
    ENSMUSP00000124394.2, ENSMUST00000162159.8
    Conserved Domains (3) summary
    sd00033
    Location:1131 → 1156
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1226 → 1365
    LRR_9; Leucine-rich repeat
    NF033189
    Location:878 → 1261
    internalin_A; class 1 internalin InlA

  2. NM_001142729.1 → NP_001136201.1  leucine-rich repeat-containing protein 9 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has an alternate 5' UTR exon and lacks multiple 3' exons, as compared to variant 1. The resulting isoform (3) is much shorter and has a different C-terminus, as compared to isoform 1.
    Source sequence(s)
    AK019545, AK031279
    UniProtKB/Swiss-Prot
    Q8CDN9
    Related
    ENSMUST00000161957.2
    Conserved Domains (3) summary
    sd00033
    Location:47 → 77
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:99 → 139
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:121 → 177
    LRR_8; Leucine rich repeat

  3. NM_030070.3 → NP_084346.2  leucine-rich repeat-containing protein 9 isoform 2

    See identical proteins and their annotated locations for NP_084346.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks multiple 3' exons and has an alternate 3' end, as compared to variant 1. The resulting isoform (2) has a shorter and different C-terminus, as compared to isoform 1.
    Source sequence(s)
    AK019545, AK029802
    Consensus CDS
    CCDS36472.2
    UniProtKB/TrEMBL
    A0A1Y7VLD2, E9PUL2
    Related
    ENSMUSP00000124602.2, ENSMUST00000161284.3
    Conserved Domains (4) summary
    pfam14580
    Location:924 → 1068
    LRR_9; Leucine-rich repeat
    sd00033
    Location:47 → 77
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:99 → 139
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:707 → 763
    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_000078.7 Reference GRCm39 C57BL/6J

    Range
    72481391..72561269
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011244211.4 → XP_011242513.1  leucine-rich repeat-containing protein 9 isoform X1

    See identical proteins and their annotated locations for XP_011242513.1

    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Conserved Domains (3) summary
    sd00033
    Location:1132 → 1157
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1227 → 1366
    LRR_9; Leucine-rich repeat
    NF033189
    Location:879 → 1262
    internalin_A; class 1 internalin InlA

  2. XM_011244209.4 → XP_011242511.1  leucine-rich repeat-containing protein 9 isoform X1

    See identical proteins and their annotated locations for XP_011242511.1

    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Conserved Domains (3) summary
    sd00033
    Location:1132 → 1157
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1227 → 1366
    LRR_9; Leucine-rich repeat
    NF033189
    Location:879 → 1262
    internalin_A; class 1 internalin InlA

  3. XM_011244210.4 → XP_011242512.1  leucine-rich repeat-containing protein 9 isoform X1

    See identical proteins and their annotated locations for XP_011242512.1

    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Conserved Domains (3) summary
    sd00033
    Location:1132 → 1157
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1227 → 1366
    LRR_9; Leucine-rich repeat
    NF033189
    Location:879 → 1262
    internalin_A; class 1 internalin InlA

  4. XM_006516375.5 → XP_006516438.1  leucine-rich repeat-containing protein 9 isoform X1

    See identical proteins and their annotated locations for XP_006516438.1

    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Conserved Domains (3) summary
    sd00033
    Location:1132 → 1157
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1227 → 1366
    LRR_9; Leucine-rich repeat
    NF033189
    Location:879 → 1262
    internalin_A; class 1 internalin InlA

  5. XM_006516377.5 → XP_006516440.1  leucine-rich repeat-containing protein 9 isoform X3

    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Conserved Domains (3) summary
    sd00033
    Location:1132 → 1157
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1227 → 1366
    LRR_9; Leucine-rich repeat
    NF033189
    Location:879 → 1262
    internalin_A; class 1 internalin InlA

  6. XM_011244213.4 → XP_011242515.1  leucine-rich repeat-containing protein 9 isoform X5

    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Conserved Domains (3) summary
    sd00033
    Location:1132 → 1157
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1227 → 1366
    LRR_9; Leucine-rich repeat
    NF033189
    Location:879 → 1262
    internalin_A; class 1 internalin InlA

  7. XM_011244214.4 → XP_011242516.1  leucine-rich repeat-containing protein 9 isoform X6

    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Related
    ENSMUSP00000152125.2, ENSMUST00000221360.2
    Conserved Domains (3) summary
    sd00033
    Location:1132 → 1157
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1227 → 1366
    LRR_9; Leucine-rich repeat
    NF033189
    Location:879 → 1262
    internalin_A; class 1 internalin InlA

  8. XM_017315246.3 → XP_017170735.1  leucine-rich repeat-containing protein 9 isoform X2

    UniProtKB/Swiss-Prot
    Q8CAD3, Q8CDN9, Q9D2J8
    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Conserved Domains (3) summary
    sd00033
    Location:1131 → 1156
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1226 → 1365
    LRR_9; Leucine-rich repeat
    NF033189
    Location:878 → 1261
    internalin_A; class 1 internalin InlA

  9. XM_006516378.4 → XP_006516441.1  leucine-rich repeat-containing protein 9 isoform X4

    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Conserved Domains (3) summary
    sd00033
    Location:1132 → 1157
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1227 → 1366
    LRR_9; Leucine-rich repeat
    NF033189
    Location:879 → 1262
    internalin_A; class 1 internalin InlA

  10. XM_006516381.4 → XP_006516444.1  leucine-rich repeat-containing protein 9 isoform X8

    Conserved Domains (3) summary
    sd00031
    Location:690 → 708
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:47 → 77
    LRR_RI; leucine-rich repeat [structural motif]
    NF033189
    Location:32 → 264
    internalin_A; class 1 internalin InlA

  11. XM_011244212.4 → XP_011242514.1  leucine-rich repeat-containing protein 9 isoform X1

    See identical proteins and their annotated locations for XP_011242514.1

    UniProtKB/TrEMBL
    A0A1Y7VLD2
    Conserved Domains (3) summary
    sd00033
    Location:1132 → 1157
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:1227 → 1366
    LRR_9; Leucine-rich repeat
    NF033189
    Location:879 → 1262
    internalin_A; class 1 internalin InlA

  12. XM_030246982.2 → XP_030102842.1  leucine-rich repeat-containing protein 9 isoform X7

    Conserved Domains (3) summary
    sd00033
    Location:679 → 704
    LRR_RI; leucine-rich repeat [structural motif]
    pfam14580
    Location:774 → 913
    LRR_9; Leucine-rich repeat
    NF033189
    Location:426 → 809
    internalin_A; class 1 internalin InlA

RNA

  1. XR_003950092.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8CDN9.2 GenPept UniProtKB/Swiss-Prot:Q8CDN9

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