Patl1 PAT1 homolog 1, processing body mRNA decay factor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Patl1provided by RGD
Official Full Name: PAT1 homolog 1, processing body mRNA decay factorprovided by RGD
Primary source: RGD:1305514
See related: EnsemblRapid:ENSRNOG00000021052 AllianceGenome:RGD:1305514
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Pat1b; RGD1305514
Summary: Predicted to enable poly(G) binding activity and poly(U) RNA binding activity. Predicted to be involved in P-body assembly and deadenylation-dependent decapping of nuclear-transcribed mRNA. 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. Orthologous to human PATL1 (PAT1 homolog 1, processing body mRNA decay factor). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 60.6), Kidney (RPKM 58.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q43

Exon count:: 22

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (218255801..218287662)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (208831115..208862904)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (228337756..228369719)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables poly(G) binding	ISO Inferred from Sequence Orthology more info
enables poly(U) RNA binding	ISO Inferred from Sequence Orthology more info

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 P-body assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in biological_process	ND No biological Data available 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	IEA Inferred from Electronic Annotation more info
involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA	ISO Inferred from Sequence Orthology more info
involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of CCR4-NOT complex	ISO Inferred from Sequence Orthology more info
part_of CCR4-NOT complex	ISS Inferred from Sequence or Structural Similarity more info
is_active_in P-body	IBA Inferred from Biological aspect of Ancestor more info
located_in P-body	IEA Inferred from Electronic Annotation more info
located_in P-body	ISO Inferred from Sequence Orthology more info
located_in P-body	ISS Inferred from Sequence or Structural Similarity more info
located_in PML body	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic ribonucleoprotein granule	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	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; protein associated with topoisomerase II homolog 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)

NM_001108520.2 → NP_001101990.1 protein PAT1 homolog 1

See identical proteins and their annotated locations for NP_001101990.1

Status: PROVISIONAL

Source sequence(s)

BC168974

UniProtKB/Swiss-Prot

B5DF93

UniProtKB/TrEMBL

A0A8I5ZRW2

Related

ENSRNOP00000059542.2, ENSRNOT00000066247.5

Conserved Domains (1) summary

cl22451
Location:8 → 104

ASF1_hist_chap; ASF1 like histone chaperone

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

218255801..218287662

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063268467.1 → XP_063124537.1 protein PAT1 homolog 1 isoform X2

UniProtKB/TrEMBL

A0A8I5ZRW2
XM_063268466.1 → XP_063124536.1 protein PAT1 homolog 1 isoform X1

UniProtKB/TrEMBL

A0A8I5ZRW2
XM_039084308.2 → XP_038940236.1 protein PAT1 homolog 1 isoform X3

Conserved Domains (1) summary

pfam09770
Location:12 → 394

PAT1; Topoisomerase II-associated protein PAT1