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Aliases for RRN3 Gene

Aliases for RRN3 Gene

  • RRN3 RNA Polymerase I Transcription Factor Homolog (S. Cerevisiae) 2 3
  • TIFIA 3 4 6
  • Transcription Initiation Factor IA 3 4
  • TIF-IA 3 4
  • RNA Polymerase I-Specific Transcription Initiation Factor RRN3 3
  • RRN3 RNA Polymerase I Transcription Factor Homolog (Yeast) 2
  • Transcription Initiation Factor TIF-IA 3
  • A-270G1.2 3

External Ids for RRN3 Gene

Previous GeneCards Identifiers for RRN3 Gene

  • GC16M016636
  • GC16P020093
  • GC16M015081
  • GC16M015120
  • GC16M015061
  • GC16M015153
  • GC16M014799

Summaries for RRN3 Gene

GeneCards Summary for RRN3 Gene

RRN3 (RRN3 RNA Polymerase I Transcription Factor Homolog (S. Cerevisiae)) is a Protein Coding gene. Among its related pathways are Gene Expression and RNA Polymerase I Promoter Opening. GO annotations related to this gene include RNA polymerase binding.

UniProtKB/Swiss-Prot for RRN3 Gene

  • Required for efficient transcription initiation by RNA polymerase I. Required for the formation of the competent preinitiation complex (PIC). Dissociates from pol I as a consequence of transcription. In vitro, cannot activate transcription in a subsequent transcription reaction (By similarity).

Gene Wiki entry for RRN3 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RRN3 Gene

Genomics for RRN3 Gene

Regulatory Elements for RRN3 Gene

Genomic Location for RRN3 Gene

Start:
15,060,022 bp from pter
End:
15,094,317 bp from pter
Size:
34,296 bases
Orientation:
Minus strand

Genomic View for RRN3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RRN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RRN3 Gene

Proteins for RRN3 Gene

  • Protein details for RRN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NYV6-RRN3_HUMAN
    Recommended name:
    RNA polymerase I-specific transcription initiation factor RRN3
    Protein Accession:
    Q9NYV6
    Secondary Accessions:
    • A2RTY9
    • B4E0J7
    • B4E3T2
    • Q3MHU9
    • Q6IPL4
    • Q9H4F0

    Protein attributes for RRN3 Gene

    Size:
    651 amino acids
    Molecular mass:
    74107 Da
    Quaternary structure:
    • Interacts with TWISTNB, EIF3L, TAF1B and TAF1C.

    Alternative splice isoforms for RRN3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RRN3 Gene

Proteomics data for RRN3 Gene at MOPED

Post-translational modifications for RRN3 Gene

  • Phosphorylation is required for participation in rDNA transcription (By similarity). Phosphorylated at Thr-200 by MAPK9/JNK2, which abrogates initiation complex formation.
  • Ubiquitination at Lys568
  • Modification sites at PhosphoSitePlus

Other Protein References for RRN3 Gene

No data available for DME Specific Peptides for RRN3 Gene

Domains for RRN3 Gene

Graphical View of Domain Structure for InterPro Entry

Q9NYV6

UniProtKB/Swiss-Prot:

RRN3_HUMAN :
  • Q9NYV6
Family:
  • Belongs to the RRN3 family.
genes like me logo Genes that share domains with RRN3: view

No data available for Gene Families for RRN3 Gene

Function for RRN3 Gene

Molecular function for RRN3 Gene

UniProtKB/Swiss-Prot Function: Required for efficient transcription initiation by RNA polymerase I. Required for the formation of the competent preinitiation complex (PIC). Dissociates from pol I as a consequence of transcription. In vitro, cannot activate transcription in a subsequent transcription reaction (By similarity).

Gene Ontology (GO) - Molecular Function for RRN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005488 binding --
GO:0070063 RNA polymerase binding IEA --
genes like me logo Genes that share ontologies with RRN3: view
genes like me logo Genes that share phenotypes with RRN3: view

Animal Models for RRN3 Gene

MGI Knock Outs for RRN3:

miRNA for RRN3 Gene

miRTarBase miRNAs that target RRN3

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for RRN3 Gene

Localization for RRN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RRN3 Gene

Nucleus, nucleolus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RRN3 Gene COMPARTMENTS Subcellular localization image for RRN3 gene
Compartment Confidence
nucleus 5
cytosol 2
mitochondrion 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for RRN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IDA --
genes like me logo Genes that share ontologies with RRN3: view

Pathways for RRN3 Gene

genes like me logo Genes that share pathways with RRN3: view

Gene Ontology (GO) - Biological Process for RRN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001701 in utero embryonic development IEA --
GO:0006352 DNA-templated transcription, initiation --
GO:0006360 transcription from RNA polymerase I promoter TAS --
GO:0006361 transcription initiation from RNA polymerase I promoter TAS --
GO:0007000 nucleolus organization IEA --
genes like me logo Genes that share ontologies with RRN3: view

Transcripts for RRN3 Gene

Unigene Clusters for RRN3 Gene

RRN3 RNA polymerase I transcription factor homolog (S. cerevisiae):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RRN3 Gene

No ASD Table

Relevant External Links for RRN3 Gene

GeneLoc Exon Structure for
RRN3
ECgene alternative splicing isoforms for
RRN3

Expression for RRN3 Gene

mRNA expression in normal human tissues for RRN3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RRN3 Gene

SOURCE GeneReport for Unigene cluster for RRN3 Gene Hs.460078

genes like me logo Genes that share expressions with RRN3: view

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for RRN3 Gene

Orthologs for RRN3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for RRN3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RRN3 35
  • 99.58 (n)
  • 99.82 (a)
RRN3 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RRN3 35
  • 88.87 (n)
  • 91.61 (a)
RRN3 36
  • 87 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RRN3 35
  • 89.08 (n)
  • 91.77 (a)
RRN3 36
  • 90 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rrn3 35
  • 86.28 (n)
  • 88.04 (a)
Rrn3 16
Rrn3 36
  • 87 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RRN3 36
  • 80 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RRN3 36
  • 80 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rrn3 35
  • 85.97 (n)
  • 87.42 (a)
chicken
(Gallus gallus)
Aves RRN3 35
  • 74.06 (n)
  • 72.27 (a)
RRN3 36
  • 70 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RRN3 36
  • 65 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rrn3 35
  • 68.8 (n)
  • 70.59 (a)
Str.15752 35
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.3554 35
zebrafish
(Danio rerio)
Actinopterygii rrn3 35
  • 64.63 (n)
  • 64.01 (a)
rrn3 36
  • 61 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP009024 35
  • 45.74 (n)
  • 35.47 (a)
fruit fly
(Drosophila melanogaster)
Insecta Tif-IA 35
  • 47.58 (n)
  • 34.46 (a)
Tif-IA 36
  • 29 (a)
OneToOne
Tif-IA 37
  • 31 (a)
worm
(Caenorhabditis elegans)
Secernentea C36E8.1 35
  • 45.47 (n)
  • 31.13 (a)
C36E8.1 36
  • 22 (a)
OneToOne
C36E8.1 37
  • 24 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RRN3 36
  • 23 (a)
OneToOne
RRN3 38
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G39240 35
  • 43.49 (n)
  • 32.89 (a)
rice
(Oryza sativa)
Liliopsida Os06g0688100 35
  • 44.68 (n)
  • 31.68 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU09247 35
  • 42.1 (n)
  • 27.87 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rrn3 35
  • 44.25 (n)
  • 29.63 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2045 36
  • 37 (a)
OneToOne
Species with no ortholog for RRN3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RRN3 Gene

ENSEMBL:
Gene Tree for RRN3 (if available)
TreeFam:
Gene Tree for RRN3 (if available)

Paralogs for RRN3 Gene

Selected SIMAP similar genes for RRN3 Gene using alignment to 6 proteins:

genes like me logo Genes that share paralogs with RRN3: view

No data available for Paralogs for RRN3 Gene

Variants for RRN3 Gene

Sequence variations from dbSNP and Humsavar for RRN3 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type MAF
VAR_051886 -

Structural Variations from Database of Genomic Variants (DGV) for RRN3 Gene

Variant ID Type Subtype PubMed ID
dgv811e1 CNV Complex 17122850
dgv812e1 CNV Complex 17122850
nsv511045 OTHER Complex 20534489
nsv7277 OTHER Inversion 18451855
dgv813e1 CNV Complex 17122850
nsv905361 CNV Gain 21882294
dgv814e1 CNV Complex 17122850
essv12354 CNV CNV 17122850
dgv2606n71 CNV Loss 21882294
dgv2607n71 CNV Gain 21882294
nsv905374 CNV Gain 21882294
dgv2608n71 CNV Loss 21882294
nsv905377 CNV Gain 21882294
nsv905380 CNV Gain 21882294
nsv509598 CNV Insertion 20534489
dgv344n27 CNV Loss 19166990
nsv457426 CNV Gain 19166990
dgv815e1 CNV Complex 17122850
esv270464 CNV Insertion 20981092
dgv2609n71 CNV Gain 21882294

Relevant External Links for RRN3 Gene

HapMap Linkage Disequilibrium report
RRN3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RRN3 Gene

Disorders for RRN3 Gene

No disorders were found for RRN3 Gene.

No data available for UniProtKB/Swiss-Prot for RRN3 Gene

Publications for RRN3 Gene

  1. RNA polymerase I transcription factor Rrn3 is functionally conserved between yeast and human. (PMID: 10758157) Moorefield B. … Reeder R.H. (Proc. Natl. Acad. Sci. U.S.A. 2000) 2 3 4 23
  2. Multiple interactions between RNA polymerase I, TIF-IA and TAF(I) subunits regulate preinitiation complex assembly at the ribosomal gene promoter. (PMID: 12393749) Yuan X. … Grummt I. (EMBO Rep. 2002) 3 4 23
  3. hRRN3 is essential in the SL1-mediated recruitment of RNA polymerase I to rRNA gene promoters. (PMID: 11250903) Miller G. … Zomerdijk J.C.B.M. (EMBO J. 2001) 2 3 4
  4. TIF-IA, the factor mediating growth-dependent control of ribosomal RNA synthesis, is the mammalian homolog of yeast Rrn3p. (PMID: 11265758) Bodem J. … Grummt I. (EMBO Rep. 2000) 3 4
  5. ERK-dependent phosphorylation of the transcription initiation factor TIF-IA is required for RNA polymerase I transcription and cell growth. (PMID: 12620228) Zhao J. … Grummt I. (Mol. Cell 2003) 3 23

Products for RRN3 Gene

  • Addgene plasmids for RRN3

Sources for RRN3 Gene

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