Chfr checkpoint with forkhead and ring finger domains [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Chfrprovided by RGD
Official Full Name: checkpoint with forkhead and ring finger domainsprovided by RGD
Primary source: RGD:1306360
See related: EnsemblRapid:ENSRNOG00000037430 AllianceGenome:RGD:1306360
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
Summary: Predicted to enable nucleotide binding activity and ubiquitin protein ligase activity. Predicted to be involved in meiotic spindle checkpoint signaling; mitotic G2/M transition checkpoint; and ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within several processes, including positive regulation of protein metabolic process; protein destabilization; and protein polyubiquitination. Predicted to be located in PML body. Predicted to be active in nucleus. Orthologous to human CHFR (checkpoint with forkhead and ring finger domains). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in Thymus (RPKM 121.0), Spleen (RPKM 90.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 12q16

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (52164214..52197860, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (46504497..46538104, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (52562594..52596162, complement)

Chromosome 12 - NC_086030.1 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?

These results show that Chfr and Grb14 collaborate in a negative feedback loop controlling insulin-stimulated cell division.
Title: Insulin-induced cell division is controlled by the adaptor Grb14 in a Chfr-dependent manner.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D12Rat44 (e-PCR)
- UniSTS:118290

RH137227 (e-PCR)
- UniSTS:219315

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	ISO Inferred from Sequence Orthology 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 biological_process	ND No biological Data available more info
involved_in cell division	IEA Inferred from Electronic Annotation more info
involved_in meiotic spindle checkpoint signaling	ISO Inferred from Sequence Orthology more info
involved_in mitotic G2/M transition checkpoint	IBA Inferred from Biological aspect of Ancestor more info
involved_in mitotic G2/M transition checkpoint	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mitotic cell cycle	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of proteasomal ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of protein ubiquitination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein destabilization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein polyubiquitination	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in PML body	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

General protein information

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Preferred Names: E3 ubiquitin-protein ligase CHFR

Names: checkpoint with forkhead and ring finger domains, E3 ubiquitin protein ligase

NP_001009258.1

EC 2.3.2.27

XP_006249597.1

EC 2.3.2.27

XP_006249598.1

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_001009258.1 → NP_001009258.1 E3 ubiquitin-protein ligase CHFR

See identical proteins and their annotated locations for NP_001009258.1

Status: PROVISIONAL

Source sequence(s)

BC087162

UniProtKB/TrEMBL

A6J2C9, F1LN16, Q5PQJ8

Conserved Domains (3) summary

COG1716
Location:27 → 140

FHA; Forkhead associated (FHA) domain, binds pSer, pThr, pTyr [Signal transduction mechanisms]

cd00060
Location:16 → 105

FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...

cd00162
Location:302 → 345

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_086030.1 Reference GRCr8

Range

52164214..52197860 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006249535.5 → XP_006249597.1 E3 ubiquitin-protein ligase CHFR isoform X1

UniProtKB/TrEMBL

A0A8J8XDG1, A6J2C9

Related

ENSRNOP00000053478.4, ENSRNOT00000056639.5

Conserved Domains (3) summary

COG1716
Location:27 → 140

FHA; Forkhead associated (FHA) domain, binds pSer, pThr, pTyr [Signal transduction mechanisms]

cd00060
Location:16 → 105

FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...

cd00162
Location:302 → 345

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 ...
XM_006249536.5 → XP_006249598.1 E3 ubiquitin-protein ligase CHFR isoform X2

UniProtKB/TrEMBL

A0A8I5XWV2, A6J2C9

Related

ENSRNOP00000078152.1, ENSRNOT00000099226.2

Conserved Domains (3) summary

COG1716
Location:27 → 140

FHA; Forkhead associated (FHA) domain, binds pSer, pThr, pTyr [Signal transduction mechanisms]

cd00060
Location:16 → 105

FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...

cd00162
Location:302 → 345

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 ...