Padi4 peptidyl arginine deiminase 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Padi4provided by RGD
Official Full Name: peptidyl arginine deiminase 4provided by RGD
Primary source: RGD:3290
See related: EnsemblRapid:ENSRNOG00000006855 AllianceGenome:RGD:3290
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: Pdi4
Summary: Enables protein-arginine deiminase activity. Predicted to be involved in nucleosome assembly; post-translational protein modification; and stem cell population maintenance. Predicted to be part of protein-containing complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human PADI4 (peptidyl arginine deiminase 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 13.2), Spleen (RPKM 7.2) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (158324417..158357466, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (153041351..153074412, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (159260675..159293906, complement)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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 calcium ion binding	IEA Inferred from Electronic Annotation more info
enables calcium ion binding	ISO Inferred from Sequence Orthology more info
enables calcium ion binding	ISS Inferred from Sequence or Structural Similarity more info
enables histone H1R54 arginine deiminase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AR3 arginine deiminase activity	IEA Inferred from Electronic Annotation more info
enables histone H3R17 arginine deiminase activity	ISO Inferred from Sequence Orthology more info
enables histone H3R2 arginine deiminase activity	ISO Inferred from Sequence Orthology more info
enables histone H3R26 arginine deiminase activity	ISO Inferred from Sequence Orthology more info
enables histone H3R8 arginine deiminase activity	ISO Inferred from Sequence Orthology more info
enables histone H4R3 arginine deiminase activity	IEA Inferred from Electronic Annotation more info
enables histone arginine deiminase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone arginine deiminase activity	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein-arginine deiminase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein-arginine deiminase activity	IEA Inferred from Electronic Annotation more info
enables protein-arginine deiminase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in chromatin organization	ISO Inferred from Sequence Orthology more info
involved_in chromatin organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in chromatin remodeling	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	ISS Inferred from Sequence or Structural Similarity more info
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
involved_in nucleosome assembly	ISO Inferred from Sequence Orthology more info
involved_in nucleosome assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in post-translational protein modification	ISO Inferred from Sequence Orthology more info
involved_in stem cell population maintenance	ISO Inferred from Sequence Orthology more info
involved_in stem cell population maintenance	ISS Inferred from Sequence or Structural Similarity more info

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

General protein information

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Preferred Names: protein-arginine deiminase type-4

Names: PAD-R4; peptidyl arginine deiminase, type 4; peptidyl arginine deiminase, type IV; peptidylarginine deiminase IV; peptidylarginine deiminase type alpha; protein-arginine deiminase type IV

NP_058923.1

EC 3.5.3.15

XP_006239207.3

EC 3.5.3.15

XP_017448694.1

EC 3.5.3.15

XP_017448695.1

EC 3.5.3.15

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_017227.1 → NP_058923.1 protein-arginine deiminase type-4

See identical proteins and their annotated locations for NP_058923.1

Status: PROVISIONAL

Source sequence(s)

AB010999

UniProtKB/Swiss-Prot

O35117, O88807

UniProtKB/TrEMBL

A0A8I6ADU5, A6ITP3

Related

ENSRNOP00000009081.2, ENSRNOT00000009081.4

Conserved Domains (3) summary

pfam03068
Location:286 → 663

PAD; Protein-arginine deiminase (PAD)

pfam08526
Location:1 → 111

PAD_N; Protein-arginine deiminase (PAD) N-terminal domain

pfam08527
Location:113 → 272

PAD_M; Protein-arginine deiminase (PAD) middle domain