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Rtraf RNA transcription, translation and transport factor [ Mus musculus (house mouse) ]

Gene ID: 68045, updated on 12-May-2024

Summary

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Official Symbol
Rtrafprovided by MGI
Official Full Name
RNA transcription, translation and transport factorprovided by MGI
Primary source
MGI:MGI:1915295
See related
Ensembl:ENSMUSG00000021807 AllianceGenome:MGI:1915295
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
2700060E02Rik
Summary
Predicted to enable RNA binding activity; RNA polymerase II complex binding activity; and identical protein binding activity. Predicted to be involved in negative regulation of protein kinase activity; positive regulation of transcription by RNA polymerase II; and tRNA splicing, via endonucleolytic cleavage and ligation. Predicted to be located in microtubule cytoskeleton; nucleoplasm; and perinuclear region of cytoplasm. Predicted to be part of tRNA-splicing ligase complex. Is expressed in several structures, including alimentary system; brain; cardiovascular system; genitourinary system; and respiratory system. Orthologous to human RTRAF (RNA transcription, translation and transport factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in placenta adult (RPKM 51.4), CNS E11.5 (RPKM 47.9) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Rtraf in Genome Data Viewer
Location:
14 10.95 cM; 14 A3
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (19861470..19873891, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (19811402..19823823, complement)

Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene prostaglandin D receptor pseudogene Neighboring gene predicted gene, 29899 Neighboring gene STARR-seq mESC enhancer starr_36077 Neighboring gene STARR-seq mESC enhancer starr_36080 Neighboring gene nidogen 2 Neighboring gene STARR-positive B cell enhancer ABC_E9891 Neighboring gene DNA segment, Chr 14, ERATO Doi 670, expressed Neighboring gene STARR-seq mESC enhancer starr_36086 Neighboring gene guanine nucleotide binding protein (G protein), gamma 2 Neighboring gene STARR-seq mESC enhancer starr_36089

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Integrative genomics positions MKRN1 as a novel ribonucleoprotein within the embryonic stem cell gene regulatory network. Cassar PA, et al. EMBO Rep, 2015 Oct. PMID 26265008, Free PMC Article
  2. Comprehensive interactome of Otx2 in the adult mouse neural retina. Fant B, et al. Genesis, 2015 Nov. PMID 26426291
  3. Insights into specificity, redundancy and new cellular functions of C/EBPa and C/EBPb transcription factors through interactome network analysis. Cirilli M, et al. Biochim Biophys Acta Gen Subj, 2017 Feb. PMID 27746211
  4. Elucidation of the 14-3-3ζ interactome reveals critical roles of RNA-splicing factors during adipogenesis. Mugabo Y, et al. J Biol Chem, 2018 May 4. PMID 29530978, Free PMC Article
  5. Prosaposin facilitates sortilin-independent lysosomal trafficking of progranulin. Zhou X, et al. J Cell Biol, 2015 Sep 14. PMID 26370502, Free PMC Article

See all (35) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (2) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables RNA polymerase II complex binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in negative regulation of protein kinase activity ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in tRNA splicing, via endonucleolytic cleavage and ligation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in tRNA splicing, via endonucleolytic cleavage and ligation ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
located_in mitotic spindle ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
  
part_of tRNA-splicing ligase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of tRNA-splicing ligase complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
RNA transcription, translation and transport factor protein
Names
UPF0568 protein C14orf166 homolog

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)

  1. NM_026528.3 → NP_080804.1  RNA transcription, translation and transport factor protein

    See identical proteins and their annotated locations for NP_080804.1

    Status: VALIDATED

    Source sequence(s)
    AK012486, AK160555
    Consensus CDS
    CCDS26839.1
    UniProtKB/Swiss-Prot
    Q9CQE8
    UniProtKB/TrEMBL
    Q4VA29
    Related
    ENSMUSP00000022341.6, ENSMUST00000022341.7
    Conserved Domains (1) summary
    pfam10036
    Location:8 → 243
    RLL; Putative carnitine deficiency-associated protein

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000080.7 Reference GRCm39 C57BL/6J

    Range
    19861470..19873891 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9CQE8.1 GenPept UniProtKB/Swiss-Prot:Q9CQE8

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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