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Vps72 vacuolar protein sorting 72 [ Mus musculus (house mouse) ]

Gene ID: 21427, updated on 2-Nov-2024

Summary

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Official Symbol
Vps72provided by MGI
Official Full Name
vacuolar protein sorting 72provided by MGI
Primary source
MGI:MGI:1202305
See related
Ensembl:ENSMUSG00000008958 AllianceGenome:MGI:1202305
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
YL-1; Tcfl1
Summary
Enables histone binding activity. Acts upstream of or within somatic stem cell population maintenance. Predicted to be located in nuclear speck. Predicted to be part of NuA4 histone acetyltransferase complex and nucleosome. Predicted to be active in nucleus. Is expressed in several structures, including branchial arch; central nervous system; genitourinary system; limb; and sensory organ. Orthologous to human VPS72 (vacuolar protein sorting 72 homolog). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 52.7), CNS E14 (RPKM 42.9) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Vps72 in Genome Data Viewer
Location:
3 F2.1; 3 40.74 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (95018353..95030362)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (95111042..95123051)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene phosphatidylinositol-4-phosphate 5-kinase, type 1 alpha Neighboring gene STARR-seq mESC enhancer starr_08366 Neighboring gene predicted gene, 40095 Neighboring gene predicted gene, 22301 Neighboring gene STARR-seq mESC enhancer starr_08367 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:94914795-94915038 Neighboring gene tropomodulin 4 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:94937828-94938011 Neighboring gene sodium channel modifier 1 Neighboring gene LysM, putative peptidoglycan-binding, domain containing 1 Neighboring gene microRNA 8099-1

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. Molecular cloning of a novel human cDNA on chromosome 1q21 and its mouse homolog encoding a nuclear protein with DNA-binding ability. Horikawa I, et al. Biochem Biophys Res Commun, 1995 Mar 28. PMID 7702631
  2. High-resolution mapping of the sodium channel modifier Scnm1 on mouse chromosome 3 and identification of a 1.3-kb recombination hot spot. Buchner DA, et al. Genomics, 2003 Oct. PMID 13679025
  3. Znhit1 controls intestinal stem cell maintenance by regulating H2A.Z incorporation. Zhao B, et al. Nat Commun, 2019 Mar 6. PMID 30842416, Free PMC Article
  4. Purification of a human SRCAP complex that remodels chromatin by incorporating the histone variant H2A.Z into nucleosomes. Ruhl DD, et al. Biochemistry, 2006 May 2. PMID 16634648
  5. A functional screen to identify novel effectors of hematopoietic stem cell activity. Deneault E, et al. Cell, 2009 Apr 17. PMID 19379700, Free PMC Article

See all (35) 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 (1) 
  • Targeted (1) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP-dependent H2AZ histone chaperone activity IEA
Inferred from Electronic Annotation
more info
  
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables histone binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables histone binding ISO
Inferred from Sequence Orthology
more info
  
enables histone chaperone activity ISO
Inferred from Sequence Orthology
more info
  
enables histone chaperone activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in positive regulation of DNA-templated transcription NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in positive regulation of double-strand break repair via homologous recombination ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in regulation of apoptotic process NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in regulation of cell cycle ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of double-strand break repair NAS
Non-traceable Author Statement
more info
 PubMed 
acts_upstream_of_or_within somatic stem cell population maintenance IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in transcription initiation-coupled chromatin remodeling ISO
Inferred from Sequence Orthology
more info
  
involved_in transcription initiation-coupled chromatin remodeling ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
part_of NuA4 histone acetyltransferase complex ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear speck IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
  
part_of nucleosome ISO
Inferred from Sequence Orthology
more info
  
part_of nucleosome NAS
Non-traceable Author Statement
more info
 PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
  
part_of protein-containing complex ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
vacuolar protein sorting-associated protein 72 homolog
Names
protein YL-1
transcription factor-like 1

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_009336.2 → NP_033362.2  vacuolar protein sorting-associated protein 72 homolog

    See identical proteins and their annotated locations for NP_033362.2

    Status: VALIDATED

    Source sequence(s)
    AK140284, BY294768
    Consensus CDS
    CCDS38543.1
    UniProtKB/Swiss-Prot
    Q3U2N4, Q62481, Q810A9, Q99K81
    Related
    ENSMUSP00000009102.9, ENSMUST00000009102.9
    Conserved Domains (3) summary
    pfam04180
    Location:22 → 78
    LTV; Low temperature viability protein
    pfam05764
    Location:6 → 216
    YL1; YL1 nuclear protein
    pfam08265
    Location:295 → 323
    YL1_C; YL1 nuclear protein C-terminal domain

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_000069.7 Reference GRCm39 C57BL/6J

    Range
    95018353..95030362
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q62481.2 GenPept UniProtKB/Swiss-Prot:Q62481

Gene LinkOut

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

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