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

    Gene ID: 78257, updated on 5-Mar-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
    Orthologous to human LRRC9 (leucine rich repeat containing 9). [provided by Alliance of Genome Resources, Apr 2022]
    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
    • 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
    		  

    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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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