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Fam50b family with sequence similarity 50, member B [ Mus musculus (house mouse) ]

Gene ID: 108161, updated on 2-Nov-2024

Summary

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Official Symbol
Fam50bprovided by MGI
Official Full Name
family with sequence similarity 50, member Bprovided by MGI
Primary source
MGI:MGI:1351640
See related
Ensembl:ENSMUSG00000038246 AllianceGenome:MGI:1351640
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
X5L; D0H6S2654E; XAP-5-like
Summary
Predicted to be involved in chromatin organization. Predicted to be located in intercellular bridge; midbody; and nucleoplasm. Predicted to be active in nucleus. Is expressed in primary spermatocyte; seminiferous tubule; and spermatid. Orthologous to human FAM50B (family with sequence similarity 50 member B). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Restricted expression toward testis adult (RPKM 88.8) See more
Orthologs
human all
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Genomic context

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See Fam50b in Genome Data Viewer
Location:
13 A3.3; 13 14.18 cM
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (34918833..34931605)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (34734850..34747622)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_34156 Neighboring gene STARR-positive B cell enhancer mm9_chr13:34735014-34735315 Neighboring gene STARR-positive B cell enhancer mm9_chr13:34735430-34735730 Neighboring gene PX domain containing 1 Neighboring gene predicted gene 15908 Neighboring gene STARR-seq mESC enhancer starr_34157 Neighboring gene STARR-positive B cell enhancer ABC_E4064 Neighboring gene VISTA enhancer mm180 Neighboring gene STARR-positive B cell enhancer ABC_E11539 Neighboring gene STARR-positive B cell enhancer ABC_E7222 Neighboring gene STARR-positive B cell enhancer ABC_E7223 Neighboring gene ribosomal protein S4, X-linked pseudogene Neighboring gene predicted gene, 36839 Neighboring gene pre-mRNA processing factor 4B

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. Human and mouse XAP-5 and XAP-5-like (X5L) genes: identification of an ancient functional retroposon differentially expressed in testis. Sedlacek Z, et al. Genomics, 1999 Oct 15. PMID 10534398
  2. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, 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. 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
  5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

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) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
involved_in chromatin organization IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in intercellular bridge IEA
Inferred from Electronic Annotation
more info
  
located_in intercellular bridge ISO
Inferred from Sequence Orthology
more info
  
located_in midbody IEA
Inferred from Electronic Annotation
more info
  
located_in midbody ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
protein FAM50B

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_001382856.1 → NP_001369785.1  protein FAM50B

    Status: VALIDATED

    Source sequence(s)
    AC132344
    UniProtKB/Swiss-Prot
    Q80X84, Q9D993, Q9WTJ8
    Related
    ENSMUSP00000046980.7, ENSMUST00000039605.8
    Conserved Domains (1) summary
    pfam04921
    Location:117 → 333
    XAP5; circadian clock regulator

  2. NM_138746.2 → NP_620085.2  protein FAM50B

    See identical proteins and their annotated locations for NP_620085.2

    Status: VALIDATED

    Source sequence(s)
    AC132344
    Consensus CDS
    CCDS49232.1
    UniProtKB/Swiss-Prot
    Q80X84, Q9D993, Q9WTJ8
    Related
    ENSMUSP00000152187.2, ENSMUST00000221037.2
    Conserved Domains (1) summary
    pfam04921
    Location:117 → 333
    XAP5; circadian clock regulator

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_000079.7 Reference GRCm39 C57BL/6J

    Range
    34918833..34931605
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NG_001505.1: Suppressed sequence

    Description
    NG_001505.1: This RefSeq was permanently suppressed because it is now thought that this gene does encode a protein.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9WTJ8.1 GenPept UniProtKB/Swiss-Prot:Q9WTJ8

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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