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Protein

Splicing factor U2af small subunit A

Gene

U2AF35A

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Necessary for the splicing of pre-mRNA.By similarity

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri12 – 40C3H1-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri148 – 175C3H1-type 2PROSITE-ProRule annotationAdd BLAST28

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

DNA-binding, Metal-binding, RNA-binding, Zinc

Enzyme and pathway databases

ReactomeiR-OSA-72163. mRNA Splicing - Major Pathway.
R-OSA-72187. mRNA 3'-end processing.

Names & Taxonomyi

Protein namesi
Recommended name:
Splicing factor U2af small subunit A
Alternative name(s):
U2 auxiliary factor 35 kDa subunit A
U2 small nuclear ribonucleoprotein auxiliary factor small subunit A
Short name:
U2 snRNP auxiliary factor small subunit A
Zinc finger CCCH domain-containing protein 60
Short name:
OsC3H60
Gene namesi
Name:U2AF35A
Ordered Locus Names:Os09g0491756, LOC_Os09g31482
ORF Names:OsJ_028686
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryza
Proteomesi
  • UP000059680 Componenti: Chromosome 9

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003467981 – 290Splicing factor U2af small subunit AAdd BLAST290

Proteomic databases

PaxDbiQ9ZQW8.

Expressioni

Gene expression databases

GenevisibleiQ9ZQW8. OS.

Interactioni

Protein-protein interaction databases

STRINGi39947.LOC_Os09g31482.1.

Structurei

3D structure databases

ProteinModelPortaliQ9ZQW8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini44 – 146RRMPROSITE-ProRule annotationAdd BLAST103

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi178 – 275Arg/Ser-rich (RS domain)Add BLAST98

Sequence similaritiesi

Contains 2 C3H1-type zinc fingers.PROSITE-ProRule annotation
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri12 – 40C3H1-type 1PROSITE-ProRule annotationAdd BLAST29
Zinc fingeri148 – 175C3H1-type 2PROSITE-ProRule annotationAdd BLAST28

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG2202. Eukaryota.
ENOG410Z5PX. LUCA.
HOGENOMiHOG000178619.
InParanoidiQ9ZQW8.
KOiK12836.
OMAiVESLHVC.
OrthoDBiEOG09360LUX.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR003954. RRM_dom_euk.
IPR009145. U2AF_small.
IPR000571. Znf_CCCH.
[Graphical view]
PANTHERiPTHR12620. PTHR12620. 1 hit.
PfamiPF00076. RRM_1. 1 hit.
PF00642. zf-CCCH. 2 hits.
[Graphical view]
PRINTSiPR01848. U2AUXFACTOR.
SMARTiSM00360. RRM. 1 hit.
SM00361. RRM_1. 1 hit.
SM00356. ZnF_C3H1. 2 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
PS50103. ZF_C3H1. 2 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q9ZQW8-1) [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
MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHNKP SVSPTLLLSN
60 70 80 90 100
MYLRPDMITP GIDAQGNPID PEKIQADFED FYEDIFEELS KYGEIESLHV
110 120 130 140 150
CDNFADHMIG NVYVQFREED QAARALQALT GRYYSGRPII VEFSPVSDFR
160 170 180 190 200
EATCRQYEEN SCNRGGYCNF MHVKEIGRDL RKRLFGHLHR SRRSHSHGRS
210 220 230 240 250
RSPSPYHYRR DYDRRSSSRS RDHDDYYRGG SHDYYRGGSR RSSERHRSSY
260 270 280 290
DSDGSRRRHR SRTRSPVRDG SEERRAQIEQ WNREREAAQV
Length:290
Mass (Da):34,088
Last modified:May 1, 1999 - v1
Checksum:i8A2DA713C55D261A
GO
Isoform 2 (identifier: Q9ZQW8-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     256-271: Missing.

Note: No experimental confirmation available.
Show »
Length:274
Mass (Da):32,126
Checksum:iFF733A5055B2E5C7
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_035015256 – 271Missing in isoform 2. 1 PublicationAdd BLAST16

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y18349 mRNA. Translation: CAA77133.1.
Y18349 mRNA. Translation: CAA77134.1.
AC108762 Genomic DNA. No translation available.
AP008215 Genomic DNA. Translation: BAH94645.1.
AP014965 Genomic DNA. Translation: BAT08747.1.
CM000146 Genomic DNA. Translation: EAZ45203.1.
AK062560 mRNA. Translation: BAG88365.1.
AK099481 mRNA. Translation: BAG94151.1.
RefSeqiXP_015611784.1. XM_015756298.1. [Q9ZQW8-1]
XP_015611785.1. XM_015756299.1. [Q9ZQW8-1]
UniGeneiOs.87690.

Genome annotation databases

EnsemblPlantsiOS09T0491756-01; OS09T0491756-01; OS09G0491756. [Q9ZQW8-1]
OS09T0491756-02; OS09T0491756-02; OS09G0491756. [Q9ZQW8-1]
GeneIDi9268567.
GrameneiOS09T0491756-01; OS09T0491756-01; OS09G0491756.
OS09T0491756-02; OS09T0491756-02; OS09G0491756.
KEGGiosa:9268567.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y18349 mRNA. Translation: CAA77133.1.
Y18349 mRNA. Translation: CAA77134.1.
AC108762 Genomic DNA. No translation available.
AP008215 Genomic DNA. Translation: BAH94645.1.
AP014965 Genomic DNA. Translation: BAT08747.1.
CM000146 Genomic DNA. Translation: EAZ45203.1.
AK062560 mRNA. Translation: BAG88365.1.
AK099481 mRNA. Translation: BAG94151.1.
RefSeqiXP_015611784.1. XM_015756298.1. [Q9ZQW8-1]
XP_015611785.1. XM_015756299.1. [Q9ZQW8-1]
UniGeneiOs.87690.

3D structure databases

ProteinModelPortaliQ9ZQW8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi39947.LOC_Os09g31482.1.

Proteomic databases

PaxDbiQ9ZQW8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOS09T0491756-01; OS09T0491756-01; OS09G0491756. [Q9ZQW8-1]
OS09T0491756-02; OS09T0491756-02; OS09G0491756. [Q9ZQW8-1]
GeneIDi9268567.
GrameneiOS09T0491756-01; OS09T0491756-01; OS09G0491756.
OS09T0491756-02; OS09T0491756-02; OS09G0491756.
KEGGiosa:9268567.

Phylogenomic databases

eggNOGiKOG2202. Eukaryota.
ENOG410Z5PX. LUCA.
HOGENOMiHOG000178619.
InParanoidiQ9ZQW8.
KOiK12836.
OMAiVESLHVC.
OrthoDBiEOG09360LUX.

Enzyme and pathway databases

ReactomeiR-OSA-72163. mRNA Splicing - Major Pathway.
R-OSA-72187. mRNA 3'-end processing.

Gene expression databases

GenevisibleiQ9ZQW8. OS.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR003954. RRM_dom_euk.
IPR009145. U2AF_small.
IPR000571. Znf_CCCH.
[Graphical view]
PANTHERiPTHR12620. PTHR12620. 1 hit.
PfamiPF00076. RRM_1. 1 hit.
PF00642. zf-CCCH. 2 hits.
[Graphical view]
PRINTSiPR01848. U2AUXFACTOR.
SMARTiSM00360. RRM. 1 hit.
SM00361. RRM_1. 1 hit.
SM00356. ZnF_C3H1. 2 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
PS50103. ZF_C3H1. 2 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiU2AFA_ORYSJ
AccessioniPrimary (citable) accession number: Q9ZQW8
Secondary accession number(s): A3C064, B7E7L8, Q9ZQW7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 2, 2008
Last sequence update: May 1, 1999
Last modified: November 30, 2016
This is version 98 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.