PATL1 PAT1 homolog 1, processing body mRNA decay factor [Homo sapiens (human)] - Gene

Summary

Official Symbol: PATL1provided by HGNC
Official Full Name: PAT1 homolog 1, processing body mRNA decay factorprovided by HGNC
Primary source: HGNC:HGNC:26721
See related: Ensembl:ENSG00000166889 MIM:614660; AllianceGenome:HGNC:26721
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: Pat1b; hPat1b
Summary: Enables poly(G) binding activity and poly(U) RNA binding activity. Involved in P-body assembly and deadenylation-dependent decapping of nuclear-transcribed mRNA. Located in P-body and cytosol. Colocalizes with CCR4-NOT complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in bone marrow (RPKM 16.7), placenta (RPKM 9.5) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 11q12.1

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	11	NC_000011.10 (59636716..59669037, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	11	NC_060935.1 (59587649..59620355, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	11	NC_000011.9 (59404189..59436510, complement)

Chromosome 11 - NC_000011.10 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

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Another decapping activator PatL1 directly interacts with CIR and alleviates the CIR-mediated inhibition of CCR4-NOT activity in vitro. Ribosome profiling revealed that XRN1 loss impacts not only on mRNA levels but also on the translational efficiency of many cellular transcripts likely as a consequence of incomplete decay
Title: A low-complexity region in human XRN1 directly recruits deadenylation and decapping factors in 5'-3' messenger RNA decay.
evidence for a nuclear complex of Pat1b with the Lsm2-8 heptamer, which binds to the spliceosomal U6 small nuclear RNA (snRNA).
Title: Dual RNA Processing Roles of Pat1b via Cytoplasmic Lsm1-7 and Nuclear Lsm2-8 Complexes.
data indicate that P-body assembly occurs in a step-wise manner, where Rck participates in the initial suppression of mRNA translation, whereas Pat1b in a second step triggers P-body assembly and promotes mRNA decapping
Title: Role of Rck-Pat1b binding in assembly of processing-bodies.
The PATL1 as well as DCP1A, a well-known P-body marker, co-localized with a subset of ALG-2.
Title: Identification of the P-body component PATL1 as a novel ALG-2-interacting protein by in silico and far-Western screening of proline-rich proteins.
Pat1b participates in several RNA-related nuclear processes in addition to its multiple regulatory roles in the cytoplasm
Title: RNA-related nuclear functions of human Pat1b, the P-body mRNA decay factor.
Pat1b represses gene expression by inducing deadenylation of the mRNAs.
Title: The human Pat1b protein: a novel mRNA deadenylation factor identified by a new immunoprecipitation technique.
hPat1b localizes to P-bodies, while mPat1a-GFP is either found weakly in P-bodies or disperses P-bodies in a dominant-negative fashion.
Title: Distinct functions of maternal and somatic Pat1 protein paralogs.
By tethering Pat1b to a reporter mRNA, the study provides evidence that Pat1b is also functionally linked to both deadenylation and decapping.
Title: Human Pat1b connects deadenylation with mRNA decapping and controls the assembly of processing bodies.
Data show that PatL1 is essential for the interaction with mRNA decapping factors (i.e. DCP2, EDC4 and LSm1-7), whereas the P-rich region and Mid domain have distinct functions in modulating these interactions.
Title: The C-terminal alpha-alpha superhelix of Pat is required for mRNA decapping in metazoa.
The identification of two human PAT1 genes is described and one of them, PATL1, codes for an open reading frame with similar features as the yeast PAT1.
Title: Identification of PatL1, a human homolog to yeast P body component Pat1.

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Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH91886 (e-PCR)
- UniSTS:83717

STS-AA019553 (e-PCR)
- UniSTS:41764

D11S1810 (e-PCR)
- UniSTS:148845

RH102847 (e-PCR)
- UniSTS:97181

WI-14640 (e-PCR)
- UniSTS:82928

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA binding	HDA more info	PubMed
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables poly(G) binding	IDA Inferred from Direct Assay more info	PubMed
enables poly(U) RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction 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	IDA Inferred from Direct Assay more info	PubMed
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	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
part_of CCR4-NOT complex	IDA Inferred from Direct Assay more info	PubMed
is_active_in P-body	IBA Inferred from Biological aspect of Ancestor more info
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
located_in PML body	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic ribonucleoprotein granule	IDA Inferred from Direct Assay more info
located_in cytosol	IDA Inferred from Direct Assay more info
located_in cytosol	TAS Traceable Author Statement 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.