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

Gene ID: 170912, updated on 18-Apr-2019

Summary

Official Symbol
A1cfprovided by RGD
Official Full Name
APOBEC1 complementation factorprovided by RGD
Primary source
RGD:619834
See related
Ensembl:ENSRNOG00000033195
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
complementation factor that binds to RNA in a heterochromatin-associated protein complex that edits cytidine to uridine [RGD, Feb 2006]
Expression
Biased expression in Liver (RPKM 551.7) and Kidney (RPKM 211.5) See more
Orthologs

Genomic context

See A1cf in Genome Data Viewer
Location:
1q52
Exon count:
12
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (250426027..250514245)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 1 NC_005100.3 (257660187..257747893)

Chromosome 1 - NC_005100.4Genomic Context describing neighboring genes Neighboring gene protein kinase cGMP-dependent 1 Neighboring gene cleavage stimulation factor subunit 2, tau variant Neighboring gene uncharacterized LOC103691334 Neighboring gene N-acylsphingosine amidohydrolase 2 Neighboring gene sphingomyelin synthase 1

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

General gene information

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
NOT double-stranded RNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
NOT double-stranded RNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
single-stranded RNA binding IEA
Inferred from Electronic Annotation
more info
 
single-stranded RNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
single-stranded RNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
cytidine to uridine editing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytidine to uridine editing IEA
Inferred from Electronic Annotation
more info
 
cytidine to uridine editing IMP
Inferred from Mutant Phenotype
more info
PubMed 
cytidine to uridine editing ISO
Inferred from Sequence Orthology
more info
PubMed 
cytidine to uridine editing TAS
Traceable Author Statement
more info
PubMed 
embryo implantation IEA
Inferred from Electronic Annotation
more info
 
embryo implantation ISO
Inferred from Sequence Orthology
more info
PubMed 
mRNA localization resulting in posttranscriptional regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA localization resulting in posttranscriptional regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
mRNA localization resulting in posttranscriptional regulation of gene expression ISO
Inferred from Sequence Orthology
more info
PubMed 
mRNA modification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA modification IEA
Inferred from Electronic Annotation
more info
 
mRNA modification ISO
Inferred from Sequence Orthology
more info
PubMed 
mRNA processing IEA
Inferred from Electronic Annotation
more info
 
positive regulation of protein secretion IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein stabilization ISO
Inferred from Sequence Orthology
more info
PubMed 
protein stabilization ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
apolipoprotein B mRNA editing enzyme complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
apolipoprotein B mRNA editing enzyme complex IEA
Inferred from Electronic Annotation
more info
 
apolipoprotein B mRNA editing enzyme complex ISO
Inferred from Sequence Orthology
more info
PubMed 
apolipoprotein B mRNA editing enzyme complex ISS
Inferred from Sequence or Structural Similarity
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
cytoplasm ISO
Inferred from Sequence Orthology
more info
PubMed 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
mRNA editing complex IDA
Inferred from Direct Assay
more info
PubMed 
nuclear heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
PubMed 

General protein information

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

NCBI Reference Sequences (RefSeq)

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)

  1. NM_133400.1NP_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
    Q923K9
    Related
    ENSRNOP00000062802.3, ENSRNOT00000067643.4
    Conserved Domains (5) summary
    cd12486
    Location:55132
    RRM1_ACF; RNA recognition motif 1 found in vertebrate APOBEC-1 complementation factor (ACF)
    cd12498
    Location:223305
    RRM3_ACF; RNA recognition motif 3 in vertebrate APOBEC-1 complementation factor (ACF)
    TIGR01648
    Location:2586
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    pfam14709
    Location:438514
    DND1_DSRM; double strand RNA binding domain from DEAD END PROTEIN 1
    cl17169
    Location:134218
    RRM_SF; RNA recognition motif (RRM) superfamily

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005100.4 Reference Rnor_6.0 Primary Assembly

    Range
    250426027..250514245
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006231272.3XP_006231334.1  APOBEC1 complementation factor isoform X1

    Conserved Domains (5) summary
    cd12486
    Location:55132
    RRM1_ACF; RNA recognition motif 1 found in vertebrate APOBEC-1 complementation factor (ACF)
    cd12498
    Location:223305
    RRM3_ACF; RNA recognition motif 3 in vertebrate APOBEC-1 complementation factor (ACF)
    TIGR01648
    Location:2594
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    pfam14709
    Location:446522
    DND1_DSRM; double strand RNA binding domain from DEAD END PROTEIN 1
    cl17169
    Location:134218
    RRM_SF; RNA recognition motif (RRM) superfamily

Alternate Rn_Celera

Genomic

  1. AC_000069.1 Alternate Rn_Celera

    Range
    226856680..226943695
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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