Rnf168 ring finger protein 168 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rnf168provided by RGD
Official Full Name: ring finger protein 168provided by RGD
Primary source: RGD:1585168
See related: EnsemblRapid:ENSRNOG00000043345 AllianceGenome:RGD:1585168
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
Summary: Predicted to enable several functions, including K63-linked polyubiquitin modification-dependent protein binding activity; histone H2AK15 ubiquitin ligase activity; and ubiquitin binding activity. Predicted to be involved in several processes, including DNA metabolic process; chromatin remodeling; and regulation of nucleobase-containing compound metabolic process. Predicted to act upstream of or within cellular response to UV and regulation of protein localization. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of DNA repair complex and ubiquitin ligase complex. Predicted to be active in nucleus and site of double-strand break. Human ortholog(s) of this gene implicated in RIDDLE syndrome. Orthologous to human RNF168 (ring finger protein 168). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 90.5), Spleen (RPKM 74.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 11q22

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	11	NC_086029.1 (81991352..82013306, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	11	NC_051346.1 (68486313..68508296, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	11	NC_005110.4 (71721242..71743421, complement)

Chromosome 11 - NC_086029.1 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
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?

Submit: New GeneRIF Correction

General gene information

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Markers

AU048786 (e-PCR)
- UniSTS:145236

RH139965 (e-PCR)
- UniSTS:222047

RH136967 (e-PCR)
- UniSTS:219056

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables K63-linked polyubiquitin modification-dependent protein binding	IEA Inferred from Electronic Annotation more info
enables K63-linked polyubiquitin modification-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables K63-linked polyubiquitin modification-dependent protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables histone H2AK15 ubiquitin ligase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AK15 ubiquitin ligase activity	ISO Inferred from Sequence Orthology more info
enables histone binding	IEA Inferred from Electronic Annotation more info
enables histone binding	ISO Inferred from Sequence Orthology more info
enables histone binding	ISS Inferred from Sequence or Structural Similarity more info
enables histone ubiquitin ligase activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleosome binding	IBA Inferred from Biological aspect of Ancestor more info
enables nucleosome binding	IEA Inferred from Electronic Annotation more info
enables nucleosome binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin binding	ISS Inferred from Sequence or Structural Similarity more info
enables ubiquitin-protein transferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-protein transferase activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in DNA damage response	ISS Inferred from Sequence or Structural Similarity more info
involved_in DNA repair-dependent chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in DNA repair-dependent chromatin remodeling	ISO Inferred from Sequence Orthology more info
involved_in DNA repair-dependent chromatin remodeling	ISS Inferred from Sequence or Structural Similarity more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within cellular response to UV	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in double-strand break repair	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair	ISS Inferred from Sequence or Structural Similarity more info
involved_in double-strand break repair via classical nonhomologous end joining	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair via classical nonhomologous end joining	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair via nonhomologous end joining	ISO Inferred from Sequence Orthology more info
involved_in epigenetic regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in epigenetic regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in isotype switching	ISO Inferred from Sequence Orthology more info
involved_in isotype switching	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of transcription elongation by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription elongation by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription elongation by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of DNA repair	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of DNA repair	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA repair	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein K63-linked ubiquitination	IEA Inferred from Electronic Annotation more info
involved_in protein K63-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein K63-linked ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of protein localization	ISO Inferred from Sequence Orthology more info
involved_in response to ionizing radiation	IEA Inferred from Electronic Annotation more info
involved_in response to ionizing radiation	ISO Inferred from Sequence Orthology more info
involved_in response to ionizing radiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in ubiquitin-dependent protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of DNA repair complex	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 nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology 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
is_active_in site of double-strand break	IBA Inferred from Biological aspect of Ancestor more info
located_in site of double-strand break	IEA Inferred from Electronic Annotation more info
is_active_in site of double-strand break	ISO Inferred from Sequence Orthology more info
located_in site of double-strand break	ISO Inferred from Sequence Orthology more info
located_in site of double-strand break	ISS Inferred from Sequence or Structural Similarity more info
part_of ubiquitin ligase complex	IEA Inferred from Electronic Annotation more info
part_of ubiquitin ligase complex	ISO Inferred from Sequence Orthology more info
part_of ubiquitin ligase complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase RNF168

Names: RING-type E3 ubiquitin transferase RNF168; ring finger protein 168, E3 ubiquitin protein ligase

NP_001121069.2

EC 2.3.2.27

XP_038944558.1

EC 2.3.2.27

XP_038944559.1

EC 2.3.2.27

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_001127597.2 → NP_001121069.2 E3 ubiquitin-protein ligase RNF168

Status: VALIDATED

Source sequence(s)

BC166869, JAXUCZ010000011

UniProtKB/Swiss-Prot

B2RYR0

UniProtKB/TrEMBL

A0A140TA93

Related

ENSRNOP00000002395.7, ENSRNOT00000002395.9

Conserved Domains (1) summary

cd00162
Location:17 → 60

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

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_086029.1 Reference GRCr8

Range

81991352..82013306 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039088631.2 → XP_038944559.1 E3 ubiquitin-protein ligase RNF168 isoform X2

Conserved Domains (2) summary

cd16550
Location:18 → 59

RING-HC_RNF168; RING finger, HC subclass, found in RING finger protein 168 (RNF168) and similar proteins

cd22265
Location:112 → 185

UDM1_RNF168; UDM1 (ubiquitin-dependent DSB recruitment module 1) domain found in RING finger protein 168
XM_039088630.2 → XP_038944558.1 E3 ubiquitin-protein ligase RNF168 isoform X1

Conserved Domains (1) summary

cd21952
Location:182 → 232

MIU2_RNF168; second motif interacting with ubiquitin domain found in RING finger protein 168