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    Lrrc56 leucine rich repeat containing 56 [ Mus musculus (house mouse) ]

    Gene ID: 70552, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Lrrc56provided by MGI
    Official Full Name
    leucine rich repeat containing 56provided by MGI
    Primary source
    MGI:MGI:1917802
    See related
    Ensembl:ENSMUSG00000038637 AllianceGenome:MGI:1917802
    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
    mFLJ00101; 5730427C23Rik
    Summary
    Predicted to act upstream of or within cell projection organization. Predicted to be located in cilium. Human ortholog(s) of this gene implicated in primary ciliary dyskinesia 39. Orthologous to human LRRC56 (leucine rich repeat containing 56). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in testis adult (RPKM 39.7), liver E14.5 (RPKM 6.1) and 16 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    7 F5; 7 86.48 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (140774024..140789968)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (141194111..141210055)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 51459 Neighboring gene predicted gene, 22019 Neighboring gene STARR-positive B cell enhancer ABC_E9115 Neighboring gene STARR-positive B cell enhancer ABC_E11375 Neighboring gene Harvey rat sarcoma virus oncogene Neighboring gene lamin tail domain containing 2 Neighboring gene STARR-positive B cell enhancer ABC_E1749 Neighboring gene Ras association (RalGDS/AF-6) domain family (N-terminal) member 7 Neighboring gene microRNA 210

    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. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    2. 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
    3. 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
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (13) 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 (2) 

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ00101

    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
    		  
    acts_upstream_of_or_within cell projection organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cell projection IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    located_in cilium IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat-containing protein 56

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_001172064.1 → NP_001165535.1  leucine-rich repeat-containing protein 56 isoform a

      See identical proteins and their annotated locations for NP_001165535.1

      Status: VALIDATED

      Source sequence(s)
      AK017603, AK220237, CJ092649
      Consensus CDS
      CCDS22004.1
      UniProtKB/Swiss-Prot
      Q571F2, Q8K375
      Related
      ENSMUSP00000063912.5, ENSMUST00000070458.11
      Conserved Domains (2) summary
      sd00033
      Location:95 → 117
      LRR_RI; leucine-rich repeat [structural motif]
      pfam14580
      Location:110 → 230
      LRR_9; Leucine-rich repeat

    2. NM_001172065.1 → NP_001165536.1  leucine-rich repeat-containing protein 56 isoform b

      See identical proteins and their annotated locations for NP_001165536.1

      Status: VALIDATED

      Source sequence(s)
      AK017603, CJ092649
      Consensus CDS
      CCDS52440.1
      UniProtKB/TrEMBL
      Q8BMW2
      Related
      ENSMUSP00000081486.3, ENSMUST00000084446.9
      Conserved Domains (2) summary
      sd00033
      Location:95 → 117
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:92 → 195
      internalin_A; class 1 internalin InlA

    3. NM_001357825.1 → NP_001344754.1  leucine-rich repeat-containing protein 56 isoform a

      Status: VALIDATED

      Source sequence(s)
      AC108908
      Consensus CDS
      CCDS22004.1
      UniProtKB/Swiss-Prot
      Q571F2, Q8K375
      Conserved Domains (2) summary
      sd00033
      Location:95 → 117
      LRR_RI; leucine-rich repeat [structural motif]
      pfam14580
      Location:110 → 230
      LRR_9; Leucine-rich repeat

    4. NM_153777.2 → NP_722472.1  leucine-rich repeat-containing protein 56 isoform a

      See identical proteins and their annotated locations for NP_722472.1

      Status: VALIDATED

      Source sequence(s)
      AK017603, AK220237, BY075853
      Consensus CDS
      CCDS22004.1
      UniProtKB/Swiss-Prot
      Q571F2, Q8K375
      Related
      ENSMUSP00000048691.5, ENSMUST00000047093.11
      Conserved Domains (2) summary
      sd00033
      Location:95 → 117
      LRR_RI; leucine-rich repeat [structural motif]
      pfam14580
      Location:110 → 230
      LRR_9; 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_000073.7 Reference GRCm39 C57BL/6J

      Range
      140774024..140789968
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006536242.2 → XP_006536305.1  leucine-rich repeat-containing protein 56 isoform X1

      See identical proteins and their annotated locations for XP_006536305.1

      Conserved Domains (2) summary
      sd00033
      Location:102 → 124
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:99 → 202
      internalin_A; class 1 internalin InlA

    2. XM_006536241.4 → XP_006536304.1  leucine-rich repeat-containing protein 56 isoform X1

      See identical proteins and their annotated locations for XP_006536304.1

      Conserved Domains (2) summary
      sd00033
      Location:102 → 124
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:99 → 202
      internalin_A; class 1 internalin InlA

    3. XM_006536245.4 → XP_006536308.1  leucine-rich repeat-containing protein 56 isoform X3

      See identical proteins and their annotated locations for XP_006536308.1

      Conserved Domains (2) summary
      sd00033
      Location:20 → 42
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:17 → 120
      internalin_A; class 1 internalin InlA

    4. XM_030242985.1 → XP_030098845.1  leucine-rich repeat-containing protein 56 isoform X3

      Conserved Domains (2) summary
      sd00033
      Location:20 → 42
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:17 → 120
      internalin_A; class 1 internalin InlA

    5. XM_030242983.1 → XP_030098843.1  leucine-rich repeat-containing protein 56 isoform X3

      Conserved Domains (2) summary
      sd00033
      Location:20 → 42
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:17 → 120
      internalin_A; class 1 internalin InlA

    6. XM_006536247.5 → XP_006536310.1  leucine-rich repeat-containing protein 56 isoform X6

      See identical proteins and their annotated locations for XP_006536310.1

    7. XM_036153433.1 → XP_036009326.1  leucine-rich repeat-containing protein 56 isoform X6

    8. XM_036153432.1 → XP_036009325.1  leucine-rich repeat-containing protein 56 isoform X6

    9. XM_006536246.5 → XP_006536309.1  leucine-rich repeat-containing protein 56 isoform X4

      Conserved Domains (2) summary
      sd00033
      Location:102 → 124
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:99 → 202
      internalin_A; class 1 internalin InlA

    10. XM_006536240.4 → XP_006536303.1  leucine-rich repeat-containing protein 56 isoform X1

      See identical proteins and their annotated locations for XP_006536303.1

      Conserved Domains (2) summary
      sd00033
      Location:102 → 124
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:99 → 202
      internalin_A; class 1 internalin InlA

    11. XM_017312294.3 → XP_017167783.1  leucine-rich repeat-containing protein 56 isoform X5

      UniProtKB/TrEMBL
      Q8BMW2
      Conserved Domains (2) summary
      sd00033
      Location:95 → 117
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:92 → 195
      internalin_A; class 1 internalin InlA

    12. XM_030242984.2 → XP_030098844.1  leucine-rich repeat-containing protein 56 isoform X3

      Conserved Domains (2) summary
      sd00033
      Location:20 → 42
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:17 → 120
      internalin_A; class 1 internalin InlA

    13. XM_036153435.1 → XP_036009328.1  leucine-rich repeat-containing protein 56 isoform X7

      Conserved Domains (2) summary
      sd00033
      Location:20 → 42
      LRR_RI; leucine-rich repeat [structural motif]
      cd21340
      Location:17 → 158
      PPP1R42; protein phosphatase 1 regulatory subunit 42

    14. XM_030242986.2 → XP_030098846.1  leucine-rich repeat-containing protein 56 isoform X6

    15. XM_036153434.1 → XP_036009327.1  leucine-rich repeat-containing protein 56 isoform X6

    16. XM_006536244.2 → XP_006536307.1  leucine-rich repeat-containing protein 56 isoform X2

      Conserved Domains (2) summary
      sd00033
      Location:72 → 94
      LRR_RI; leucine-rich repeat [structural motif]
      NF033189
      Location:69 → 172
      internalin_A; class 1 internalin InlA
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8K375.1 GenPept UniProtKB/Swiss-Prot:Q8K375

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