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Lrrc28 leucine rich repeat containing 28 [ Mus musculus (house mouse) ]

Gene ID: 67867, updated on 28-Oct-2024

Summary

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Official Symbol
Lrrc28provided by MGI
Official Full Name
leucine rich repeat containing 28provided by MGI
Primary source
MGI:MGI:1915689
See related
Ensembl:ENSMUSG00000030556 AllianceGenome:MGI:1915689
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
1300004K21Rik; 2210012C09Rik; 2310058O11Rik
Summary
Orthologous to human LRRC28 (leucine rich repeat containing 28). [provided by Alliance of Genome Resources, Oct 2024]
Expression
Biased expression in testis adult (RPKM 53.0), bladder adult (RPKM 4.5) and 11 other tissues See more
Orthologs
human all
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Genomic context

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See Lrrc28 in Genome Data Viewer
Location:
7 C; 7 37.05 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (67163158..67295084, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (67513410..67645336, complement)

Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:74565953-74566106 Neighboring gene STARR-positive B cell enhancer ABC_E3726 Neighboring gene predicted gene, 51462 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:74589405-74589631 Neighboring gene STARR-positive B cell enhancer ABC_E4934 Neighboring gene predicted gene, 33926 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:74645213-74645604 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:74648142-74648407 Neighboring gene predicted gene, 34079 Neighboring gene predicted gene, 23233 Neighboring gene STARR-seq mESC enhancer starr_19098 Neighboring gene predicted gene, 32983 Neighboring gene STARR-seq mESC enhancer starr_19100 Neighboring gene STARR-seq mESC enhancer starr_19102 Neighboring gene STARR-positive B cell enhancer ABC_E550 Neighboring gene tetratricopeptide repeat domain 23 Neighboring gene predicted gene, 34140 Neighboring gene synemin, intermediate filament protein

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. Effect of expression alteration in flanking genes on phenotypes of St8sia2-deficient mice. Ikegami K, et al. Sci Rep, 2019 Sep 20. PMID 31541165, Free PMC Article
  2. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
  3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  4. 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
  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 (14) 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 (3) 

General gene information

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Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
  
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  

General protein information

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Preferred Names
leucine-rich repeat-containing protein 28

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_027413.1 → NP_081689.1  leucine-rich repeat-containing protein 28 isoform 2

    See identical proteins and their annotated locations for NP_081689.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks several 3' exons but has an alternate 3' exon, as compared to variant 1. The resulting isoform (2) is shorter and has a different C-terminus, as compared to isoform 1.
    Source sequence(s)
    AI663251, AK008713, AK050154
    Consensus CDS
    CCDS52269.1
    UniProtKB/TrEMBL
    Q8BWS3, Q9D7Y1
    Related
    ENSMUSP00000032775.6, ENSMUST00000032775.12
    Conserved Domains (2) summary
    sd00033
    Location:20 → 42
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:65 → 123
    LRR_8; Leucine rich repeat

  2. NM_175124.5 → NP_780333.3  leucine-rich repeat-containing protein 28 isoform 1

    See identical proteins and their annotated locations for NP_780333.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) is the longest transcript and encodes the longer isoform (1).
    Source sequence(s)
    AI663251, BC086694
    Consensus CDS
    CCDS21351.1
    UniProtKB/Swiss-Prot
    Q0VGR7, Q3TX51, Q8BK43
    Related
    ENSMUSP00000052177.3, ENSMUST00000053950.10
    Conserved Domains (2) summary
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:65 → 123
    LRR_8; Leucine rich repeat

RNA

  1. NR_028143.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an internal segment, as compared to variant 1. The transcript is a nonsense-mediated mRNA decay candidate, so is unlikely to make a functional protein.
    Source sequence(s)
    AI663251, AK004904, BC086694

  2. NR_028144.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an exon in the 5' region, as compared to variant 1. The transcript is a nonsense-mediated mRNA decay candidate, so is unlikely to make a functional protein.
    Source sequence(s)
    AI663251, BC052051, BC086694
    Related
    ENSMUST00000187953.8

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
    67163158..67295084 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006541130.4 → XP_006541193.1  leucine-rich repeat-containing protein 28 isoform X3

    Conserved Domains (3) summary
    PRK15370
    Location:41 → 281
    PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
    COG4886
    Location:34 → 157
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]

  2. XM_036153393.1 → XP_036009286.1  leucine-rich repeat-containing protein 28 isoform X2

    Conserved Domains (2) summary
    PRK15370
    Location:8 → 290
    PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]

  3. XM_036153392.1 → XP_036009285.1  leucine-rich repeat-containing protein 28 isoform X1

    Conserved Domains (3) summary
    PRK15370
    Location:8 → 232
    PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
    PRK15387
    Location:132 → 359
    PRK15387; type III secretion system effector E3 ubiquitin transferase SspH2
    sd00033
    Location:43 → 66
    LRR_RI; leucine-rich repeat [structural motif]

  4. XM_006541133.2 → XP_006541196.2  leucine-rich repeat-containing protein 28 isoform X4

    See identical proteins and their annotated locations for XP_006541196.2

    UniProtKB/TrEMBL
    Q8BVY5
    Conserved Domains (2) summary
    PRK15370
    Location:24 → 194
    PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
    sd00031
    Location:24 → 46
    LRR_1; leucine-rich repeat [structural motif]

RNA

  1. XR_391360.4 RNA Sequence

  2. XR_004934174.1 RNA Sequence

  3. XR_004934173.1 RNA Sequence

  4. XR_004934175.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3TX51.1 GenPept UniProtKB/Swiss-Prot:Q3TX51

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