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Protein

Splicing factor U2AF 26 kDa subunit

Gene

U2af1l4

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: -Experimental evidence at transcript leveli

Functioni

RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site. Shows a preference for AGC or AGA.By similarity

Caution

Orthologs of U2AF1L4 do not appear to exist in lower eukaryotes, Drosophila, C. elegans, plants, or vertebrates such as Xenopus or zebrafish. Existence of circadian and light-inducible alternative splicing of U2AF1L4 similar to the mouse in human and rat is not yet proven.Curated

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri12 – 40C3H1-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri149 – 176C3H1-type 2PROSITE-ProRule annotationAdd BLAST28

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionRNA-binding
Biological processmRNA processing, mRNA splicing
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-RNO-109688 Cleavage of Growing Transcript in the Termination Region
R-RNO-159236 Transport of Mature mRNA derived from an Intron-Containing Transcript
R-RNO-72163 mRNA Splicing - Major Pathway
R-RNO-72187 mRNA 3'-end processing

Names & Taxonomyi

Protein namesi
Recommended name:
Splicing factor U2AF 26 kDa subunit
Alternative name(s):
Liver regeneration-related protein LRRG157/LRRG158
U2 auxiliary factor 26
U2 small nuclear RNA auxiliary factor 1-like protein 4
Short name:
U2AF1-like 4By similarity
Gene namesi
Name:U2af1l4
ORF Names:Cb2-806, Cb2-807
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 1

Organism-specific databases

RGDi1305600 U2af1l4

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00003097422 – 220Splicing factor U2AF 26 kDa subunitAdd BLAST219

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineBy similarity1

Keywords - PTMi

Acetylation

Proteomic databases

PRIDEiQ7TP17

PTM databases

PhosphoSitePlusiQ7TP17

Expressioni

Gene expression databases

BgeeiENSRNOG00000024497
GenevisibleiQ7TP17 RN

Interactioni

Subunit structurei

Interacts with GFI1, U2AF2 and C1QBP.By similarity

Structurei

3D structure databases

ProteinModelPortaliQ7TP17
SMRiQ7TP17
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini65 – 147RRMPROSITE-ProRule annotationAdd BLAST83

Domaini

The second zinc finger in necessary for interaction with GFI1 and for alternative pre-mRNA splicing events.By similarity
The region 162-220 is essential for the nuclear import of the protein in spite of the absence of a nuclear localization signal (NLS). This region is essential for the interaction with C1QBP, interaction which is required for the nuclear translocation. This region may be involved in the localization in nuclear dot-like structures and it also confers the ability of nucleo-cytoplasmic shuttling.By similarity

Sequence similaritiesi

Belongs to the splicing factor SR family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri12 – 40C3H1-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri149 – 176C3H1-type 2PROSITE-ProRule annotationAdd BLAST28

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00530000063193
HOGENOMiHOG000178619
HOVERGENiHBG054605
InParanoidiQ7TP17
KOiK12836
OMAiVQEHYDS
OrthoDBiEOG091G0CUI
PhylomeDBiQ7TP17
TreeFamiTF300143

Family and domain databases

Gene3Di3.30.70.3301 hit
InterProiView protein in InterPro
IPR012677 Nucleotide-bd_a/b_plait_sf
IPR035979 RBD_domain_sf
IPR000504 RRM_dom
IPR003954 RRM_dom_euk
IPR009145 U2AF_small
IPR000571 Znf_CCCH
PANTHERiPTHR12620 PTHR12620, 1 hit
PfamiView protein in Pfam
PF00076 RRM_1, 1 hit
PF00642 zf-CCCH, 2 hits
PRINTSiPR01848 U2AUXFACTOR
SMARTiView protein in SMART
SM00360 RRM, 1 hit
SM00361 RRM_1, 1 hit
SM00356 ZnF_C3H1, 2 hits
SUPFAMiSSF54928 SSF54928, 1 hit
PROSITEiView protein in PROSITE
PS50102 RRM, 1 hit
PS50103 ZF_C3H1, 2 hits

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q7TP17-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MAEYLASIFG TEKDKVNCSF YFKIGACRHG DRCSRLHNKP TFSQTIVLLN
60 70 80 90 100
LYRNPQNTAQ TADGSHCHVS DVEVQEHYDN FFEEVFTELQ EKYGEIEEMN
110 120 130 140 150
VCDNLGDHLV GNVYVKFRRE EDAERAVAEL NNRWFNGQAV HAELSPVTDF
160 170 180 190 200
RESCCRQYEM GECTRGGFCN FMHLRPISRN LRRQLYGRGP RHRSPPRSHT
210 220
GHRPRERNRR RSPDHRHGRF
Length:220
Mass (Da):25,836
Last modified:October 1, 2003 - v1
Checksum:i90AC4B4126060169
GO
Isoform 2 (identifier: Q7TP17-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-43: MAEYLASIFG...SRLHNKPTFS → MVIQVVRTIT...SELRSLLNFV

Note: No experimental confirmation available.
Show »
Length:254
Mass (Da):29,358
Checksum:iDAE2DB104C3C66A0
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0292661 – 43MAEYL…KPTFS → MVIQVVRTITQKRKPTAERQ TSRKKNQGLTALFTLRLGPA GTGTGAPDFTTNRLSARVGY TLHAVPLSELRSLLNFV in isoform 2. 1 PublicationAdd BLAST43

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY325237 mRNA Translation: AAP92638.1
AY325238 mRNA Translation: AAP92639.1
RefSeqiNP_001008775.1, NM_001008775.1 [Q7TP17-1]
XP_006228838.1, XM_006228776.3 [Q7TP17-1]
UniGeneiRn.145185

Genome annotation databases

EnsembliENSRNOT00000038154; ENSRNOP00000030286; ENSRNOG00000024497 [Q7TP17-1]
GeneIDi361542
KEGGirno:361542
UCSCiRGD:1305600 rat [Q7TP17-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiU2AF4_RAT
AccessioniPrimary (citable) accession number: Q7TP17
Secondary accession number(s): Q7TP18
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 13, 2007
Last sequence update: October 1, 2003
Last modified: February 28, 2018
This is version 105 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome