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Xlr3b X-linked lymphocyte-regulated 3B [ Mus musculus (house mouse) ]

Gene ID: 574437, updated on 3-Apr-2024

Summary

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Official Symbol
Xlr3bprovided by MGI
Official Full Name
X-linked lymphocyte-regulated 3Bprovided by MGI
Primary source
MGI:MGI:109505
See related
Ensembl:ENSMUSG00000073125 AllianceGenome:MGI:109505
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
Xlr3; EG574437
Summary
Involved in positive regulation of dendritic spine morphogenesis and positive regulation of synapse assembly. Predicted to be located in nucleoplasm. Predicted to be active in synaptonemal complex. Is expressed in blood; brain; liver; and placenta. Orthologous to human FAM9B (family with sequence similarity 9 member B) and FAM9C (family with sequence similarity 9 member C). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in placenta adult (RPKM 16.7), liver E18 (RPKM 4.6) and 11 other tissues See more
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Genomic context

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Location:
X A7.3; X 37.29 cM
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (72235817..72246927)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (73192150..73202930)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene PWWP domain containing 4B Neighboring gene X-linked lymphocyte-regulated 5B Neighboring gene STARR-seq mESC enhancer starr_47342 Neighboring gene STARR-seq mESC enhancer starr_47343 Neighboring gene spindlin family, member 2D Neighboring gene STARR-seq mESC enhancer starr_47344 Neighboring gene X-linked lymphocyte-regulated 4B Neighboring gene factor 8-associated gene A

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. Cux1 and Cux2 regulate dendritic branching, spine morphology, and synapses of the upper layer neurons of the cortex. Cubelos B, et al. Neuron, 2010 May 27. PMID 20510857, Free PMC Article
  2. Sequence and expression of murine cDNAs encoding Xlr3a and Xlr3b, defining a new X-linked lymphocyte-regulated Xlr gene subfamily. Bergsagel PL, et al. Gene, 1994 Dec 15. PMID 7821804
  3. At Term, XmO and XpO Mouse Placentas Show Differences in Glucose Metabolism in the Trophectoderm-Derived Outer Zone. He N, et al. Front Cell Dev Biol, 2017. PMID 28680878, Free PMC Article
  4. Xlr3b is a new imprinted candidate for X-linked parent-of-origin effects on cognitive function in mice. Davies W, et al. Nat Genet, 2005 Jun. PMID 15908950
  5. Identification of a cluster of X-linked imprinted genes in mice. Raefski AS, et al. Nat Genet, 2005 Jun. PMID 15908953

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC76689, MGC102490

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 meiotic cell cycle IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of dendritic spine morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of synapse assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in spermatid development IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in synaptonemal complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
X-linked lymphocyte-regulated protein 3B

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_001081643.2 → NP_001075112.1  X-linked lymphocyte-regulated protein 3B isoform 1

    See identical proteins and their annotated locations for NP_001075112.1

    Status: VALIDATED

    Source sequence(s)
    BX571735
    Consensus CDS
    CCDS41009.1
    UniProtKB/Swiss-Prot
    Q61244, Q61806, Q6P205
    Related
    ENSMUSP00000099026.5, ENSMUST00000101486.5
    Conserved Domains (1) summary
    pfam04803
    Location:75 → 203
    Cor1; Cor1/Xlr/Xmr conserved region

  2. NM_001405805.1 → NP_001392734.1  X-linked lymphocyte-regulated protein 3B isoform 1

    Status: VALIDATED

    Source sequence(s)
    BX571735
    UniProtKB/Swiss-Prot
    Q6P205

  3. NM_001405806.1 → NP_001392735.1  X-linked lymphocyte-regulated protein 3B isoform 2

    Status: VALIDATED

    Source sequence(s)
    BX571735

RNA

  1. NR_175969.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    BX571735
    Related
    ENSMUST00000138149.2

  2. NR_175970.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    BX571735

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_000086.8 Reference GRCm39 C57BL/6J

    Range
    72235817..72246927
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6P205.1 GenPept UniProtKB/Swiss-Prot:Q6P205

Gene LinkOut

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