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Patl1 protein associated with topoisomerase II homolog 1 (yeast) [ Mus musculus (house mouse) ]

Gene ID: 225929, updated on 17-Aug-2024

Summary

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Official Symbol
Patl1provided by MGI
Official Full Name
protein associated with topoisomerase II homolog 1 (yeast)provided by MGI
Primary source
MGI:MGI:2147679
See related
Ensembl:ENSMUSG00000046139 AllianceGenome:MGI:2147679
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
Pat1b
Summary
Predicted to enable RNA binding activity and translation repressor activity. Predicted to be involved in P-body assembly and deadenylation-dependent decapping of nuclear-transcribed mRNA. Predicted to act upstream of or within negative regulation of translation. Predicted to be located in cytoplasmic ribonucleoprotein granule and cytosol. Predicted to be part of CCR4-NOT complex. Predicted to be active in P-body. Is expressed in heart; metanephros; prostate gland; and testis. Orthologous to human PATL1 (PAT1 homolog 1, processing body mRNA decay factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in limb E14.5 (RPKM 13.6), whole brain E14.5 (RPKM 11.1) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
19 A; 19 8.57 cM
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (11889728..11922462)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (11912399..11945096)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene predicted pseudogene 6365 Neighboring gene predicted gene, 31092 Neighboring gene olfactory receptor family 10 subfamily V member 1 Neighboring gene STARR-positive B cell enhancer ABC_E9000 Neighboring gene STARR-positive B cell enhancer ABC_E3244 Neighboring gene microRNA 6994 Neighboring gene predicted gene, 22272 Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:12039881-12040064 Neighboring gene uncharacterized protein C11orf98 homolog pseudogene Neighboring gene oxysterol binding 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. Distinct functions of maternal and somatic Pat1 protein paralogs. Marnef A, et al. RNA, 2010 Nov. PMID 20826699, Free PMC Article
  2. Identification and developmental analysis of genes expressed by dopaminergic neurons of the substantia nigra pars compacta. Thuret S, et al. Mol Cell Neurosci, 2004 Mar. PMID 15033168
  3. New roles for the de-ubiquitylating enzyme OTUD4 in an RNA-protein network and RNA granules. Das R, et al. J Cell Sci, 2019 Jun 17. PMID 31138677, Free PMC Article
  4. Construction of long-transcript enriched cDNA libraries from submicrogram amounts of total RNAs by a universal PCR amplification method. Piao Y, et al. Genome Res, 2001 Sep. PMID 11544199, Free PMC Article
  5. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article

See all (21) 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)
  • Targeted (2) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • D430024J04

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables G-quadruplex RNA binding ISO
Inferred from Sequence Orthology
more info
 PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables poly(G) binding ISO
Inferred from Sequence Orthology
more info
 PubMed 
enables poly(U) RNA binding ISO
Inferred from Sequence Orthology
more info
 PubMed 
enables translation repressor activity ISO
Inferred from Sequence Orthology
more info
 PubMed 
Process Evidence Code Pubs
involved_in P-body assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in P-body assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of translation ISO
Inferred from Sequence Orthology
more info
 PubMed 
Component Evidence Code Pubs
part_of CCR4-NOT complex ISO
Inferred from Sequence Orthology
more info
  
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in P-body ISO
Inferred from Sequence Orthology
more info
 PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 PubMed 
located_in cytoplasmic ribonucleoprotein granule ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
protein PAT1 homolog 1
Names
PAT1-like protein 1
protein PAT1 homolog b

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_001426305.1 → NP_001413234.1  protein PAT1 homolog 1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC124464, AC126266

  2. NM_172635.4 → NP_766223.2  protein PAT1 homolog 1 isoform 1

    See identical proteins and their annotated locations for NP_766223.2

    Status: VALIDATED

    Source sequence(s)
    AC124464, AC126266
    Consensus CDS
    CCDS37924.1
    UniProtKB/Swiss-Prot
    Q3TC46, Q3TD30, Q3U4Q3, Q3UD09, Q6PD49, Q8BN50, Q8C3S7
    Related
    ENSMUSP00000060398.8, ENSMUST00000061618.9
    Conserved Domains (1) summary
    cl22451
    Location:8 → 104
    ASF1_hist_chap; ASF1 like histone chaperone

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_000085.7 Reference GRCm39 C57BL/6J

    Range
    11889728..11922462
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036161548.1 → XP_036017441.1  protein PAT1 homolog 1 isoform X3

    Conserved Domains (2) summary
    pfam09770
    Location:241 → 436
    PAT1; Topoisomerase II-associated protein PAT1
    cl22451
    Location:8 → 104
    ASF1_hist_chap; ASF1 like histone chaperone

  2. XM_036161547.1 → XP_036017440.1  protein PAT1 homolog 1 isoform X1

    Conserved Domains (1) summary
    pfam09770
    Location:166 → 538
    PAT1; Topoisomerase II-associated protein PAT1

RNA

  1. XR_004940138.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3TC46.2 GenPept UniProtKB/Swiss-Prot:Q3TC46

Gene LinkOut

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

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