patl1 PAT1 homolog 1, processing body mRNA decay factor [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: patl1provided by ZNC
Official Full Name: PAT1 homolog 1, processing body mRNA decay factorprovided by ZNC
Primary source: ZFIN:ZDB-GENE-070209-83
See related: Ensembl:ENSDARG00000017423 AllianceGenome:ZFIN:ZDB-GENE-070209-83
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: Pat1b; fa11d04; wu:fa11d04; zgc:158239; CH73-251A15.1
Summary: Predicted to enable RNA binding activity. Predicted to be involved in P-body assembly and deadenylation-dependent decapping of nuclear-transcribed mRNA. Predicted to be located in PML body; cytoplasm; and nuclear speck. 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, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 1

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	1	NC_007112.7 (52764690..52790724, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	1	NC_007112.6 (52129952..52155986, complement)

Chromosome 1 - NC_007112.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

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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Markers

fa11d04.s1 (e-PCR)
- UniSTS:202301

fd08f11.y1 (e-PCR)
- UniSTS:195052

AA494821 (e-PCR)
- UniSTS:205304

Gene Ontology Provided by ZFIN

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	ISS Inferred from Sequence or Structural Similarity 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	ISS Inferred from Sequence or Structural Similarity more info
involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within deadenylation-dependent decapping of nuclear-transcribed mRNA	IEA Inferred from Electronic Annotation 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	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	ISS Inferred from Sequence or Structural Similarity more info
located_in PML body	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	IEA Inferred from Electronic Annotation 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.