Pan2 poly(A) specific ribonuclease subunit PAN2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pan2provided by RGD
Official Full Name: poly(A) specific ribonuclease subunit PAN2provided by RGD
Primary source: RGD:1303301
See related: EnsemblRapid:ENSRNOG00000032441 AllianceGenome:RGD:1303301
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Usp52
Summary: Predicted to enable 3'-5'-RNA exonuclease activity. Predicted to contribute to poly(A)-specific ribonuclease activity. Predicted to be involved in nuclear-transcribed mRNA poly(A) tail shortening. Predicted to be located in nucleus. Predicted to be part of PAN complex. Predicted to be active in P-body. Orthologous to human PAN2 (poly(A) specific ribonuclease subunit PAN2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 87.9), Adrenal (RPKM 78.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q11

Exon count:: 26

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (1313654..1332252)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (729146..747744)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (2717021..2736541)

Chromosome 7 - NC_086025.1 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

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

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 3'-5'-RNA exonuclease activity	ISO Inferred from Sequence Orthology more info
enables 3'-5'-RNA exonuclease activity	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info
contributes_to poly(A)-specific ribonuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables poly(A)-specific ribonuclease activity	IEA Inferred from Electronic Annotation more info
enables poly(A)-specific ribonuclease activity	ISO Inferred from Sequence Orthology more info
enables poly(A)-specific ribonuclease activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in nuclear-transcribed mRNA poly(A) tail shortening	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear-transcribed mRNA poly(A) tail shortening	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cytoplasmic mRNA processing body assembly	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
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
part_of PAN complex	IBA Inferred from Biological aspect of Ancestor more info
part_of PAN complex	IEA Inferred from Electronic Annotation more info
part_of PAN complex	ISO Inferred from Sequence Orthology more info
part_of PAN complex	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: PAN2-PAN3 deadenylation complex catalytic subunit Pan2

Names: PAB-dependent poly(A)-specific ribonuclease subunit 2; PAB-dependent poly(A)-specific ribonuclease subunit PAN2; PAB1P-dependent poly(A)-nuclease; PAB1P-dependent poly(A)-specific ribonuclease; PAN deadenylation complex catalytic subunit 2; PAN deadenylation complex subunit 2; PAN2 poly(A) specific ribonuclease subunit; PAN2 polyA specific ribonuclease subunit homolog; inactive ubiquitin carboxyl-terminal hydrolase 52; poly(A)-nuclease deadenylation complex subunit 2; ubiquitin specific peptidase 52; ubiquitin specific protease 52

NP_001382634.1

EC 3.1.13.4

NP_001382635.1

EC 3.1.13.4

XP_006240847.1

EC 3.1.13.4

XP_006240848.1

EC 3.1.13.4

XP_006240849.1

EC 3.1.13.4

XP_006240850.1

EC 3.1.13.4

XP_006240851.1

EC 3.1.13.4

XP_038935643.1

EC 3.1.13.4

XP_063120157.1

EC 3.1.13.4

XP_063120158.1

EC 3.1.13.4

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_001395705.1 → NP_001382634.1 PAN2-PAN3 deadenylation complex catalytic subunit Pan2 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/Swiss-Prot

Q6IE70

Conserved Domains (3) summary

cd06143
Location:979 → 1152

PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2

pfam13423
Location:516 → 902

UCH_1; Ubiquitin carboxyl-terminal hydrolase

cl29593
Location:75 → 357

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
NM_001395706.1 → NP_001382635.1 PAN2-PAN3 deadenylation complex catalytic subunit Pan2 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/Swiss-Prot

Q6IE70

Related

ENSRNOP00000039314.6, ENSRNOT00000050792.6

Conserved Domains (3) summary

cd06143
Location:980 → 1153

PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2

pfam13423
Location:516 → 903

UCH_1; Ubiquitin carboxyl-terminal hydrolase

cl29593
Location:75 → 357

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

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_086025.1 Reference GRCr8

Range

1313654..1332252

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006240788.5 → XP_006240850.1 PAN2-PAN3 deadenylation complex catalytic subunit Pan2 isoform X4

UniProtKB/Swiss-Prot

Q6IE70

Conserved Domains (4) summary

cd06143
Location:971 → 1144

PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2

cd02672
Location:501 → 917

Peptidase_C19P; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

pfam13423
Location:516 → 894

UCH_1; Ubiquitin carboxyl-terminal hydrolase

cl02567
Location:75 → 357

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_006240786.5 → XP_006240848.1 PAN2-PAN3 deadenylation complex catalytic subunit Pan2 isoform X2

UniProtKB/Swiss-Prot

Q6IE70

Conserved Domains (4) summary

cd06143
Location:976 → 1149

PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2

cd02672
Location:501 → 922

Peptidase_C19P; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

pfam13423
Location:516 → 899

UCH_1; Ubiquitin carboxyl-terminal hydrolase

cl02567
Location:75 → 357

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_063264088.1 → XP_063120158.1 PAN2-PAN3 deadenylation complex catalytic subunit Pan2 isoform X6
XM_063264087.1 → XP_063120157.1 PAN2-PAN3 deadenylation complex catalytic subunit Pan2 isoform X5
XM_006240787.5 → XP_006240849.1 PAN2-PAN3 deadenylation complex catalytic subunit Pan2 isoform X3

See identical proteins and their annotated locations for XP_006240849.1

UniProtKB/Swiss-Prot

Q6IE70

UniProtKB/TrEMBL

A6KSB7, R9PXX6

Conserved Domains (4) summary

cd06143
Location:975 → 1148

PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2

cd02672
Location:501 → 921

Peptidase_C19P; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

pfam13423
Location:516 → 898

UCH_1; Ubiquitin carboxyl-terminal hydrolase

cl02567
Location:75 → 357

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_006240789.5 → XP_006240851.1 PAN2-PAN3 deadenylation complex catalytic subunit Pan2 isoform X7

UniProtKB/Swiss-Prot

Q6IE70

Conserved Domains (4) summary

cd06143
Location:966 → 1139

PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2

cd02672
Location:501 → 912

Peptidase_C19P; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

pfam13423
Location:516 → 889

UCH_1; Ubiquitin carboxyl-terminal hydrolase

cl02567
Location:75 → 357

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_006240785.5 → XP_006240847.1 PAN2-PAN3 deadenylation complex catalytic subunit Pan2 isoform X1

UniProtKB/Swiss-Prot

Q6IE70

Related

ENSRNOP00000089136.1, ENSRNOT00000097010.2

Conserved Domains (3) summary

cd06143
Location:975 → 1148

PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2

pfam13423
Location:516 → 898

UCH_1; Ubiquitin carboxyl-terminal hydrolase

cl29593
Location:75 → 357

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_039079715.2 → XP_038935643.1 PAN2-PAN3 deadenylation complex catalytic subunit Pan2 isoform X8

UniProtKB/Swiss-Prot

Q6IE70

Conserved Domains (3) summary

cd06143
Location:841 → 1014

PAN2_exo; DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2

pfam13423
Location:377 → 764

UCH_1; Ubiquitin carboxyl-terminal hydrolase

cl29593
Location:21 → 218

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...