A1cf APOBEC1 complementation factor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: A1cfprovided by RGD
Official Full Name: APOBEC1 complementation factorprovided by RGD
Primary source: RGD:619834
See related: Ensembl:ENSRNOG00000033195 AllianceGenome:RGD:619834
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: Acf; A1cft; Apobec-1
Summary: Enables mRNA binding activity. Involved in cytidine to uridine editing and positive regulation of protein secretion. Located in cytoplasm and heterochromatin. Part of mRNA editing complex. Human ortholog(s) of this gene implicated in gout. Orthologous to human A1CF (APOBEC1 complementation factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Liver (RPKM 551.7) and Kidney (RPKM 211.5) See more
Orthologs: human mouse all
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Genomic context

Location:: 1q52

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (239149436..239242460)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (229736037..229823499)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (250426027..250514245)

Chromosome 1 - NC_086019.1 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?

N-terminal 320 amino acids of ACF retained RNA-binding selectivity and supported complementation of editing activity and in addition demonstrate a novel RNA-bridged multimerization of ACF.
Title: APOBEC-1 complementation factor (ACF) forms RNA-dependent multimers.
role in in vitro deamination of cytosine to uracil in single-stranded DNA
Title: In vitro deamination of cytosine to uracil in single-stranded DNA by apolipoprotein B editing complex catalytic subunit 1 (APOBEC1).
phosphorylation of ACF by protein kinase C may be a key regulatory mechanism of apoB mRNA editing in rat hepatocytes
Title: Functional characterization of APOBEC-1 complementation factor phosphorylation sites.
ACF plays a crucial role, which is independent of apobec-1 expression, in cell survival, particularly during early embryonic development
Title: Targeted deletion of the murine apobec-1 complementation factor (acf) gene results in embryonic lethality.
Splice variants of this protein are associated with different capacities to support apoB mrna editing.
Title: Identification of novel alternative splice variants of APOBEC-1 complementation factor with different capacities to support apolipoprotein B mRNA editing.
promoter demonstrates a progressive loss of CpG dinudleotide methylation towards the core promoter region that is entirely unmethylated
Title: Reduced expression and increased CpG dinucleotide methylation of the rat APOBEC-1 promoter in transgenic rabbits.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
NOT enables double-stranded RNA binding	ISO Inferred from Sequence Orthology more info
NOT enables double-stranded RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables enzyme-substrate adaptor activity	ISO Inferred from Sequence Orthology more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables single-stranded RNA binding	ISO Inferred from Sequence Orthology more info
enables single-stranded RNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in cytidine to uridine editing	IEA Inferred from Electronic Annotation more info
involved_in cytidine to uridine editing	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cytidine to uridine editing	ISO Inferred from Sequence Orthology more info
involved_in cytidine to uridine editing	ISO Inferred from Sequence Orthology more info
involved_in cytidine to uridine editing	TAS Traceable Author Statement more info	PubMed
involved_in embryo implantation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryo implantation	ISO Inferred from Sequence Orthology more info
involved_in mRNA localization resulting in post-transcriptional regulation of gene expression	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA localization resulting in post-transcriptional regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in mRNA modification	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA modification	ISO Inferred from Sequence Orthology more info
involved_in mRNA modification	ISO Inferred from Sequence Orthology more info
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein secretion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in protein stabilization	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of apolipoprotein B mRNA editing enzyme complex	ISO Inferred from Sequence Orthology more info
part_of apolipoprotein B mRNA editing enzyme complex	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
part_of heterochromatin	IDA Inferred from Direct Assay more info	PubMed
part_of mRNA editing complex	IDA Inferred from Direct Assay more info	PubMed
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	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: APOBEC1 complementation factor

Names: APOBEC1 complementation factort; APOBEC1-stimulating protein; Apobec-1 complementation factor, APOBEC-1 stimulating protein

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_133400.1 → NP_596891.1 APOBEC1 complementation factor

See identical proteins and their annotated locations for NP_596891.1

Status: PROVISIONAL

Source sequence(s)

AF290984

UniProtKB/Swiss-Prot

Q8CH55, Q8CH56, Q8CH57, Q8CH58, Q923K9, Q924K3

Conserved Domains (5) summary

cd12486
Location:55 → 132

RRM1_ACF; RNA recognition motif 1 found in vertebrate APOBEC-1 complementation factor (ACF)

cd12498
Location:223 → 305

RRM3_ACF; RNA recognition motif 3 in vertebrate APOBEC-1 complementation factor (ACF)

TIGR01648
Location:2 → 586

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

pfam14709
Location:438 → 514

DND1_DSRM; double strand RNA binding domain from DEAD END PROTEIN 1

cl17169
Location:134 → 218

RRM_SF; RNA recognition motif (RRM) superfamily