Rc3h1 ring finger and CCCH-type domains 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rc3h1provided by RGD
Official Full Name: ring finger and CCCH-type domains 1provided by RGD
Primary source: RGD:1563512
See related: EnsemblRapid:ENSRNOG00000002750 AllianceGenome:RGD:1563512
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: RGD1563512
Summary: Predicted to enable several functions, including CCR4-NOT complex binding activity; RNA binding activity; and zinc ion binding activity. Predicted to be involved in several processes, including P-body assembly; negative regulation of lymphocyte activation; and regulation of RNA metabolic process. Predicted to act upstream of or within several processes, including T cell activation; hematopoietic or lymphoid organ development; and lymphocyte homeostasis. Predicted to be located in P-body. Predicted to be active in cytoplasmic stress granule. Orthologous to human RC3H1 (ring finger and CCCH-type domains 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 167.1), Lung (RPKM 149.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q22

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (75707098..75779114)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (73174075..73245762)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (78723028..78794663)

Chromosome 13 - NC_086031.1 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: 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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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables CCR4-NOT complex binding	ISO Inferred from Sequence Orthology more info
enables RNA stem-loop binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA stem-loop binding	ISO Inferred from Sequence Orthology more info
enables double-stranded RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded RNA binding	ISO Inferred from Sequence Orthology more info
enables mRNA 3'-UTR binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA binding	ISO Inferred from Sequence Orthology more info
enables miRNA binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in 3'-UTR-mediated mRNA destabilization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within B cell homeostasis	ISO Inferred from Sequence Orthology more info
involved_in P-body assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T cell homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in T cell receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T follicular helper cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lymph node development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of B cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of T-helper 17 cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of T-helper cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of activated T cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of germinal center formation	ISO Inferred from Sequence Orthology more info
involved_in nuclear-transcribed mRNA catabolic process	ISO Inferred from Sequence Orthology more info
involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mRNA catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of non-canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within post-transcriptional regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in post-transcriptional regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in protein polyubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein polyubiquitination	ISO Inferred from Sequence Orthology more info
involved_in regulation of T cell receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in regulation of germinal center formation	ISO Inferred from Sequence Orthology more info
involved_in regulation of mRNA stability	ISO Inferred from Sequence Orthology more info
involved_in regulation of miRNA metabolic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within spleen development	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in P-body	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasmic stress granule	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic stress granule	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: ring finger and CCCH-type domains 1; roquin-1

Names: RING CCCH (C3H) domains 1; ring finger and CCCH-type zinc finger domains 1

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_001430820.1 → NP_001417749.1 ring finger and CCCH-type domains 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A0A8I5ZR20, A6ID65

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_086031.1 Reference GRCr8

Range

75707098..75779114

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008769698.4 → XP_008767920.1 roquin-1

Related

ENSRNOP00000079488.1, ENSRNOT00000003689.10

Conserved Domains (2) summary

smart00184
Location:14 → 52

RING; Ring finger

pfam00642
Location:414 → 440

zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)