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Protein

Splicing factor U2af small subunit A

Gene

U2AF35A

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Necessary for the splicing of pre-mRNA (By similarity). Probably active at the 3' splice sites.By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri12 – 4029C3H1-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri148 – 17528C3H1-type 2PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • mRNA splicing, via spliceosome Source: InterPro
  • photoperiodism, flowering Source: TAIR
Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

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

Enzyme and pathway databases

ReactomeiR-ATH-72163. mRNA Splicing - Major Pathway.
R-ATH-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 8
Short name:
AtC3H8
Gene namesi
Name:U2AF35A
Synonyms:AUSA
Ordered Locus Names:At1g27650
ORF Names:T17H3.14, T22C5.10
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G27650.

Subcellular locationi

GO - Cellular componenti

  • nuclear speck Source: UniProtKB-SubCell
  • nucleus Source: TAIR
  • spliceosomal complex Source: UniProtKB-KW
  • U2AF Source: InterPro
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 296296Splicing factor U2af small subunit APRO_0000371961Add
BLAST

Proteomic databases

PaxDbiQ9S709.
PRIDEiQ9S709.

PTM databases

iPTMnetiQ9S709.

Expressioni

Gene expression databases

ExpressionAtlasiQ9S709. baseline and differential.
GenevisibleiQ9S709. AT.

Interactioni

Subunit structurei

Component of the spliceosome. Homo- and heterodimer. Interacts with U2AF35B, RNU1 and SR45.1 Publication

Protein-protein interaction databases

BioGridi24892. 5 interactions.
STRINGi3702.AT1G27650.1.

Structurei

3D structure databases

ProteinModelPortaliQ9S709.
SMRiQ9S709. Positions 15-190.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini44 – 146103RRMPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi178 – 288111Arg/Ser-rich (RS domain)Add
BLAST

Sequence similaritiesi

Belongs to the splicing factor SR family.Curated
Contains 2 C3H1-type zinc fingers.PROSITE-ProRule annotation
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri12 – 4029C3H1-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri148 – 17528C3H1-type 2PROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG2202. Eukaryota.
ENOG410Z5PX. LUCA.
HOGENOMiHOG000178619.
InParanoidiQ9S709.
OMAiPHREFSH.
PhylomeDBiQ9S709.

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.
SMARTiSM00361. 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]

Sequencei

Sequence statusi: Complete.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: Q9S709-1) [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 DRCSRLHNRP TISPTLLLSN
60 70 80 90 100
MYQRPDMITP GVDAQGQPLD PRKIQEHFED FFEDLFEELG KFGEIESLNI
110 120 130 140 150
CDNLADHMIG NVYVQFKEED QAAAALQALQ GRFYSGRPII ADFSPVTDFR
160 170 180 190 200
EATCRQYEEN NCNRGGYCNF MHVKLVSREL RRKLFGRYRR SYRRGSRSRS
210 220 230 240 250
RSRSISPRNK RDNDRRDPSH REFSHRDRDR EFYRHGSGKR SSERSERQER
260 270 280 290
DGSRGRRQAS PKRGGSPGGG REGSEERRAR IEQWNREREE KEEGGA
Length:296
Mass (Da):34,572
Last modified:May 1, 2000 - v1
Checksum:iF284D29BF68445BF
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti163 – 1631N → Y in AAL06331 (PubMed:16407443).Curated
Sequence conflicti185 – 1851F → S in AAL06331 (PubMed:16407443).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF409139 mRNA. Translation: AAL06331.1.
AC005916 Genomic DNA. Translation: AAD46002.1.
AC012375 Genomic DNA. Translation: AAF24943.1.
CP002684 Genomic DNA. Translation: AEE30858.1.
AF344324 mRNA. Translation: AAK06875.1.
AY065202 mRNA. Translation: AAL38678.1.
AY090343 mRNA. Translation: AAL91249.1.
AY096507 mRNA. Translation: AAM20157.1.
AY122894 mRNA. Translation: AAM67427.1.
AY088540 mRNA. Translation: AAM66073.1.
RefSeqiNP_174086.1. NM_102530.3. [Q9S709-1]
UniGeneiAt.20200.
At.63995.
At.67851.

Genome annotation databases

EnsemblPlantsiAT1G27650.1; AT1G27650.1; AT1G27650. [Q9S709-1]
GeneIDi839657.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF409139 mRNA. Translation: AAL06331.1.
AC005916 Genomic DNA. Translation: AAD46002.1.
AC012375 Genomic DNA. Translation: AAF24943.1.
CP002684 Genomic DNA. Translation: AEE30858.1.
AF344324 mRNA. Translation: AAK06875.1.
AY065202 mRNA. Translation: AAL38678.1.
AY090343 mRNA. Translation: AAL91249.1.
AY096507 mRNA. Translation: AAM20157.1.
AY122894 mRNA. Translation: AAM67427.1.
AY088540 mRNA. Translation: AAM66073.1.
RefSeqiNP_174086.1. NM_102530.3. [Q9S709-1]
UniGeneiAt.20200.
At.63995.
At.67851.

3D structure databases

ProteinModelPortaliQ9S709.
SMRiQ9S709. Positions 15-190.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi24892. 5 interactions.
STRINGi3702.AT1G27650.1.

PTM databases

iPTMnetiQ9S709.

Proteomic databases

PaxDbiQ9S709.
PRIDEiQ9S709.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G27650.1; AT1G27650.1; AT1G27650. [Q9S709-1]
GeneIDi839657.

Organism-specific databases

TAIRiAT1G27650.

Phylogenomic databases

eggNOGiKOG2202. Eukaryota.
ENOG410Z5PX. LUCA.
HOGENOMiHOG000178619.
InParanoidiQ9S709.
OMAiPHREFSH.
PhylomeDBiQ9S709.

Enzyme and pathway databases

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

Miscellaneous databases

PROiQ9S709.

Gene expression databases

ExpressionAtlasiQ9S709. baseline and differential.
GenevisibleiQ9S709. AT.

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.
SMARTiSM00361. 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...

Publicationsi

« Hide 'large scale' publications
  1. "Molecular characterization and phylogeny of U2AF35 homologs in plants."
    Wang B.-B., Brendel V.
    Plant Physiol. 140:624-636(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], SUBCELLULAR LOCATION.
    Strain: cv. Columbia.
    Tissue: Root.
  2. "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana."
    Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K.
    , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.
    Nature 408:816-820(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  5. "Full-length cDNA from Arabidopsis thaliana."
    Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A.
    Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  6. "Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice."
    Wang D., Guo Y., Wu C., Yang G., Li Y., Zheng C.
    BMC Genomics 9:44-44(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NOMENCLATURE.
  7. "Interactions of SR45, an SR-like protein, with spliceosomal proteins and an intronic sequence: insights into regulated splicing."
    Day I.S., Golovkin M., Palusa S.G., Link A., Ali G.S., Thomas J., Richardson D.N., Reddy A.S.
    Plant J. 71:936-947(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH RNU1; SR45 AND U2AF35B, SUBCELLULAR LOCATION.

Entry informationi

Entry nameiU2AFA_ARATH
AccessioniPrimary (citable) accession number: Q9S709
Secondary accession number(s): Q945S1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 5, 2009
Last sequence update: May 1, 2000
Last modified: May 11, 2016
This is version 122 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. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  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.