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

Gene ID: 70552, updated on 18-Sep-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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See Lrrc56 in Genome Data Viewer
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 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
  
involved_in cell projection organization IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
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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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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