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RRN3 RRN3 homolog, RNA polymerase I transcription factor [ Homo sapiens (human) ]

Gene ID: 54700, updated on 22-Aug-2020

Summary

Official Symbol
RRN3provided by HGNC
Official Full Name
RRN3 homolog, RNA polymerase I transcription factorprovided by HGNC
Primary source
HGNC:HGNC:30346
See related
Ensembl:ENSG00000085721 MIM:605121
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TIFIA; A-270G1.2
Expression
Ubiquitous expression in bone marrow (RPKM 15.3), thyroid (RPKM 14.8) and 25 other tissues See more
Orthologs

Genomic context

See RRN3 in Genome Data Viewer
Location:
16p13.11
Exon count:
18
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (15060022..15094335, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (15153879..15188168, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene pyridoxal dependent decarboxylase domain containing 1 Neighboring gene Sharpr-MPRA regulatory region 1947 Neighboring gene N-terminal asparagine amidase Neighboring gene Sharpr-MPRA regulatory region 13846 Neighboring gene uncharacterized LOC100505915 Neighboring gene PKD1P6-NPIPP1 readthrough Neighboring gene nuclear pore complex interacting protein pseudogene 1 Neighboring gene polycystin 1, transient receptor potential channel interacting pseudogene 6 Neighboring gene microRNA 6511b-2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Genome-wide association study of plasma N6 polyunsaturated fatty acids within the cohorts for heart and aging research in genomic epidemiology consortium.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC104238, DKFZp566E104

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA polymerase I CORE element sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA polymerase I core binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase I general transcription initiation factor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
RNA polymerase I preinitiation complex assembly IEA
Inferred from Electronic Annotation
more info
 
cell proliferation IEA
Inferred from Electronic Annotation
more info
 
cytoplasm organization IEA
Inferred from Electronic Annotation
more info
 
homeostasis of number of cells IEA
Inferred from Electronic Annotation
more info
 
in utero embryonic development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator IEA
Inferred from Electronic Annotation
more info
 
nucleolus organization IEA
Inferred from Electronic Annotation
more info
 
positive regulation of neuron projection development IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
regulation of DNA-templated transcription, initiation IEA
Inferred from Electronic Annotation
more info
 
ribosome biogenesis IEA
Inferred from Electronic Annotation
more info
 
transcription initiation from RNA polymerase I promoter IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcription initiation from RNA polymerase I promoter TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
RNA polymerase I-specific transcription initiation factor RRN3
Names
RRN3 RNA polymerase I transcription factor homolog
TIF-IA
transcription initiation factor IA
transcription initiation factor TIF-IA

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_001301064.1NP_001287993.1  RNA polymerase I-specific transcription initiation factor RRN3 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. It encodes isoform 2 which is shorter than isoform 1.
    Source sequence(s)
    AK316520, BC036182, CK906270, DA764092, DC376629
    Consensus CDS
    CCDS73833.1
    UniProtKB/TrEMBL
    B7ZB55, F5H148
    Related
    ENSP00000402027.2, ENST00000429751.6
    Conserved Domains (1) summary
    pfam05327
    Location:85555
    RRN3; RNA polymerase I specific transcription initiation factor RRN3
  2. NM_018427.5NP_060897.3  RNA polymerase I-specific transcription initiation factor RRN3 isoform 1

    See identical proteins and their annotated locations for NP_060897.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AK225662, BC036182, BC132688
    Consensus CDS
    CCDS10559.1
    UniProtKB/Swiss-Prot
    Q9NYV6
    Related
    ENSP00000198767.6, ENST00000198767.10
    Conserved Domains (1) summary
    pfam05327
    Location:64585
    RRN3; RNA polymerase I specific transcription initiation factor RRN3

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

    Range
    15060022..15094335 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p13 ALT_REF_LOCI_1

Genomic

  1. NT_187607.1 Reference GRCh38.p13 ALT_REF_LOCI_1

    Range
    575341..609658
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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