Rnf213 ring finger protein 213 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rnf213provided by RGD
Official Full Name: ring finger protein 213provided by RGD
Primary source: RGD:1308168
See related: EnsemblRapid:ENSRNOG00000029658 AllianceGenome:RGD:1308168
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: RGD1308168
Summary: Predicted to enable ATP hydrolysis activity and ubiquitin protein ligase activity. Predicted to be involved in several processes, including defense response to other organism; lipid droplet formation; and protein ubiquitination. Predicted to be located in cytoplasm and lipid droplet. Predicted to be active in cytosol and nucleolus. Human ortholog(s) of this gene implicated in Moyamoya disease. Orthologous to human RNF213 (ring finger protein 213). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Spleen (RPKM 413.6), Adrenal (RPKM 287.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q32.3

Exon count:: 71

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (105154873..105254148)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (104656329..104755669)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (108527351..108626372)

Chromosome 10 - NC_086028.1 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
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?

Knockdown the moyamoya disease susceptibility gene, RNF213, upregulates the expression of basic fibroblast growth factor and matrix metalloproteinase-9 in bone marrow derived mesenchymal stem cells.
Title: Knockdown the moyamoya disease susceptibility gene, RNF213, upregulates the expression of basic fibroblast growth factor and matrix metalloproteinase-9 in bone marrow derived mesenchymal stem cells.
Novel signaling axis of FHOD1-RNF213-Col1alpha/Col3alpha in the pathogenesis of hypertension-induced tunica media thickening.
Title: Novel signaling axis of FHOD1-RNF213-Col1α/Col3α in the pathogenesis of hypertension-induced tunica media thickening.
Report up-regulation of the Rnf213 gene in vulnerable neurons in the hippocampus CA1 after transient global cerebral ischemia.
Title: Transient Global Cerebral Ischemia Induces RNF213, a Moyamoya Disease Susceptibility Gene, in Vulnerable Neurons of the Rat Hippocampus CA1 Subregion and Ischemic Cortex.

Submit: New GeneRIF Correction

General gene information

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Markers

d10rat135 (e-PCR)
- UniSTS:120651

RH139717 (e-PCR)
- UniSTS:221801

RH143345 (e-PCR)
- UniSTS:232592

RH128310 (e-PCR)
- UniSTS:211618

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP hydrolysis activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology 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

Process	Evidence Code	Pubs
involved_in angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in defense response to bacterium	ISO Inferred from Sequence Orthology more info
involved_in immune system process	IEA Inferred from Electronic Annotation more info
involved_in lipid droplet formation	ISO Inferred from Sequence Orthology more info
involved_in lipid ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of non-canonical Wnt signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of non-canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in protein K63-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein autoubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in regulation of lipid metabolic process	ISO Inferred from Sequence Orthology more info
involved_in sprouting angiogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in sprouting angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in xenophagy	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in lipid droplet	ISO Inferred from Sequence Orthology more info
is_active_in nucleolus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase RNF213

Names: protein ALO17

NP_001414610.1

EC 2.3.2.27

XP_038943469.1

EC 2.3.2.27

XP_038943470.1

EC 2.3.2.27

XP_038943471.1

EC 2.3.2.27

XP_063125317.1

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_001427681.1 → NP_001414610.1 E3 ubiquitin-protein ligase RNF213

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

A0A8I6AKP6, F1M0R1

Related

ENSRNOP00000049006.7, ENSRNOT00000044983.7

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_086028.1 Reference GRCr8

Range

105154873..105254148

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039087541.2 → XP_038943469.1 E3 ubiquitin-protein ligase RNF213 isoform X1

UniProtKB/TrEMBL

F1M0R1

Conserved Domains (5) summary

smart00382
Location:2427 → 2549

AAA; ATPases associated with a variety of cellular activities

COG5574
Location:3931 → 4039

PEX10; RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

cd00162
Location:4000 → 4038

RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]

pfam12773
Location:3 → 29

DZR; Double zinc ribbon

cl17238
Location:4000 → 4039

RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
XM_039087542.2 → XP_038943470.1 E3 ubiquitin-protein ligase RNF213 isoform X2

UniProtKB/TrEMBL

F1M0R1

Related

ENSRNOP00000104006.1, ENSRNOT00000142479.1

Conserved Domains (5) summary

smart00382
Location:2427 → 2549

AAA; ATPases associated with a variety of cellular activities

COG5574
Location:3930 → 4038

PEX10; RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

cd00162
Location:3999 → 4037

RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]

pfam12773
Location:3 → 29

DZR; Double zinc ribbon

cl17238
Location:3999 → 4038

RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
XM_039087543.2 → XP_038943471.1 E3 ubiquitin-protein ligase RNF213 isoform X3

UniProtKB/TrEMBL

F1M0R1

Related

ENSRNOP00000095018.2, ENSRNOT00000109296.2

Conserved Domains (5) summary

smart00382
Location:2384 → 2506

AAA; ATPases associated with a variety of cellular activities

COG5574
Location:3888 → 3996

PEX10; RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

cd00162
Location:3957 → 3995

RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]

pfam12773
Location:3 → 29

DZR; Double zinc ribbon

cl17238
Location:3957 → 3996

RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
XM_063269247.1 → XP_063125317.1 E3 ubiquitin-protein ligase RNF213 isoform X1

UniProtKB/TrEMBL

F1M0R1