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Xlr5b X-linked lymphocyte-regulated 5B [ Mus musculus (house mouse) ]

Gene ID: 627081, updated on 8-Feb-2024

Summary

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Official Symbol
Xlr5bprovided by MGI
Official Full Name
X-linked lymphocyte-regulated 5Bprovided by MGI
Primary source
MGI:MGI:3574109
See related
Ensembl:ENSMUSG00000072479 AllianceGenome:MGI:3574109
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary
Predicted to be involved in meiotic cell cycle and spermatid development. Predicted to be located in nucleoplasm. Predicted to be active in synaptonemal complex. Is expressed in hindgut diverticulum. 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
Restricted expression toward placenta adult (RPKM 15.6) See more
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Genomic context

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See Xlr5b in Genome Data Viewer
Location:
X A7.3; X 37.29 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) X NC_000086.8 (72191390..72202492)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (73147784..73158886)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene X-linked lymphocyte-regulated 3A Neighboring gene X-linked lymphocyte-regulated 5A Neighboring gene PWWP domain containing 4A Neighboring gene PWWP domain containing 4B Neighboring gene STARR-seq mESC enhancer starr_47342 Neighboring gene STARR-seq mESC enhancer starr_47343 Neighboring gene STARR-seq mESC enhancer starr_47344 Neighboring gene spindlin family, member 2D Neighboring gene X-linked lymphocyte-regulated 3B

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. 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
  2. Identification of a cluster of X-linked imprinted genes in mice. Raefski AS, et al. Nat Genet, 2005 Jun. PMID 15908953
  3. Integrated microarray and ChIP analysis identifies multiple Foxa2 dependent target genes in the notochord. Tamplin OJ, et al. Dev Biol, 2011 Dec 15. PMID 22008794
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

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
  
Process Evidence Code Pubs
involved_in meiotic cell cycle IBA
Inferred from Biological aspect of Ancestor
more info
  
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 5B

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_001111293.1 → NP_001104763.1  X-linked lymphocyte-regulated 5B

    See identical proteins and their annotated locations for NP_001104763.1

    Status: PROVISIONAL

    Source sequence(s)
    BX813330
    Consensus CDS
    CCDS53095.1
    UniProtKB/TrEMBL
    A2BI50, Q80UK6
    Related
    ENSMUSP00000110164.3, ENSMUST00000114518.9
    Conserved Domains (1) summary
    pfam04803
    Location:78 → 207
    Cor1; Cor1/Xlr/Xmr conserved region

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
    72191390..72202492
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006528221.4 → XP_006528284.1  X-linked lymphocyte-regulated 5B isoform X1

    See identical proteins and their annotated locations for XP_006528284.1

    UniProtKB/TrEMBL
    A2BI50, Q80UK6
    Conserved Domains (1) summary
    pfam04803
    Location:78 → 207
    Cor1; Cor1/Xlr/Xmr conserved region

  2. XM_006528223.4 → XP_006528286.1  X-linked lymphocyte-regulated 5B isoform X1

    See identical proteins and their annotated locations for XP_006528286.1

    UniProtKB/TrEMBL
    A2BI50, Q80UK6
    Conserved Domains (1) summary
    pfam04803
    Location:78 → 207
    Cor1; Cor1/Xlr/Xmr conserved region

  3. XM_006528218.4 → XP_006528281.1  X-linked lymphocyte-regulated 5B isoform X1

    See identical proteins and their annotated locations for XP_006528281.1

    UniProtKB/TrEMBL
    A2BI50, Q80UK6
    Conserved Domains (1) summary
    pfam04803
    Location:78 → 207
    Cor1; Cor1/Xlr/Xmr conserved region

  4. XM_006528220.3 → XP_006528283.1  X-linked lymphocyte-regulated 5B isoform X1

    See identical proteins and their annotated locations for XP_006528283.1

    UniProtKB/TrEMBL
    A2BI50, Q80UK6
    Conserved Domains (1) summary
    pfam04803
    Location:78 → 207
    Cor1; Cor1/Xlr/Xmr conserved region

  5. XM_006528225.3 → XP_006528288.1  X-linked lymphocyte-regulated 5B isoform X2

    UniProtKB/TrEMBL
    Q80UK6
    Conserved Domains (1) summary
    pfam04803
    Location:78 → 174
    Cor1; Cor1/Xlr/Xmr conserved region

  6. XM_030251463.1 → XP_030107323.1  X-linked lymphocyte-regulated 5B isoform X3

    UniProtKB/TrEMBL
    A2BI49
    Related
    ENSMUSP00000120174.2, ENSMUST00000135742.8
    Conserved Domains (1) summary
    pfam04803
    Location:78 → 177
    Cor1; Cor1/Xlr/Xmr conserved region

  7. XM_006528219.3 → XP_006528282.1  X-linked lymphocyte-regulated 5B isoform X1

    See identical proteins and their annotated locations for XP_006528282.1

    UniProtKB/TrEMBL
    A2BI50, Q80UK6
    Conserved Domains (1) summary
    pfam04803
    Location:78 → 207
    Cor1; Cor1/Xlr/Xmr conserved region

  8. XM_006528222.4 → XP_006528285.1  X-linked lymphocyte-regulated 5B isoform X1

    See identical proteins and their annotated locations for XP_006528285.1

    UniProtKB/TrEMBL
    A2BI50, Q80UK6
    Conserved Domains (1) summary
    pfam04803
    Location:78 → 207
    Cor1; Cor1/Xlr/Xmr conserved region

  9. XM_006528224.3 → XP_006528287.1  X-linked lymphocyte-regulated 5B isoform X1

    See identical proteins and their annotated locations for XP_006528287.1

    UniProtKB/TrEMBL
    A2BI50, Q80UK6
    Conserved Domains (1) summary
    pfam04803
    Location:78 → 207
    Cor1; Cor1/Xlr/Xmr conserved region
Nucleotide Protein Strain
Heading Accession and Version

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