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Protein

Serine/arginine-rich splicing factor SR30

Gene

SR30

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

Functioni

Regulatory splicing factor that modulates alternative splicing and gene expression in specific cell types. Autoregulates its own expression. Probably involved in intron recognition and spliceosome assembly.1 Publication

GO - Molecular functioni

  • mRNA binding Source: TAIR
  • nucleotide binding Source: InterPro

GO - Biological processi

  • mRNA splice site selection Source: TAIR
  • regulation of mRNA splicing, via spliceosome Source: TAIR
Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiR-ATH-72163. mRNA Splicing - Major Pathway.
R-ATH-72165. mRNA Splicing - Minor Pathway.
R-ATH-72187. mRNA 3'-end processing.

Names & Taxonomyi

Protein namesi
Recommended name:
Serine/arginine-rich splicing factor SR30
Short name:
At-SR30
Short name:
At-SRp30
Short name:
AtSR30
Alternative name(s):
SF2/ASF-like splicing modulator Srp30
Serine-arginine rich RNA binding protein 30
Gene namesi
Name:SR30
Synonyms:SRP30
Ordered Locus Names:At1g09140
ORF Names:T12M4.19
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G09140.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: UniProtKB-SubCell
  • interchromatin granule Source: TAIR
  • nuclear speck Source: TAIR
  • spliceosomal complex Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004295951 – 268Serine/arginine-rich splicing factor SR30Add BLAST268

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei193PhosphoserineBy similarity1
Modified residuei210PhosphoserineBy similarity1
Modified residuei212PhosphoserineBy similarity1
Modified residuei214PhosphoserineBy similarity1
Modified residuei219PhosphoserineBy similarity1
Modified residuei221PhosphoserineBy similarity1
Modified residuei227PhosphoserineBy similarity1
Modified residuei236PhosphoserineBy similarity1
Modified residuei246PhosphoserineBy similarity1
Modified residuei256PhosphoserineBy similarity1
Modified residuei260PhosphoserineBy similarity1

Post-translational modificationi

Phosphorylated.2 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ9XFR5.
PRIDEiQ9XFR5.

PTM databases

iPTMnetiQ9XFR5.

Expressioni

Tissue specificityi

Ubiquitous.2 Publications

Inductioni

Up-regulated by paraquat, high salt and early after high-light irradiation. Down-regulated by cold.3 Publications

Gene expression databases

ExpressionAtlasiQ9XFR5. baseline and differential.
GenevisibleiQ9XFR5. AT.

Interactioni

Subunit structurei

Component of the spliceosome. Interacts with SNRNP35, CYP59 and CYP63.3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
CYP63Q9LY754EBI-1540237,EBI-2360522

Protein-protein interaction databases

BioGridi22674. 11 interactors.
IntActiQ9XFR5. 13 interactors.
STRINGi3702.AT1G09140.1.

Structurei

3D structure databases

ProteinModelPortaliQ9XFR5.
SMRiQ9XFR5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini7 – 82RRM 1PROSITE-ProRule annotationAdd BLAST76
Domaini109 – 187RRM 2PROSITE-ProRule annotationAdd BLAST79

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi181 – 267Arg/Ser-rich (RS domain)Add BLAST87

Sequence similaritiesi

Belongs to the splicing factor SR family. SR subfamily.Curated
Contains 2 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0105. Eukaryota.
COG0724. LUCA.
HOGENOMiHOG000276234.
InParanoidiQ9XFR5.
KOiK12890.
OMAiRINVSGF.
OrthoDBiEOG09360OW1.
PhylomeDBiQ9XFR5.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 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: Q9XFR5-1) [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
MSSRWNRTIY VGNLPGDIRK CEVEDLFYKY GPIVDIDLKI PPRPPGYAFV
60 70 80 90 100
EFEDPRDADD AIYGRDGYDF DGCRLRVEIA HGGRRFSPSV DRYSSSYSAS
110 120 130 140 150
RAPSRRSDYR VLVTGLPPSA SWQDLKDHMR KAGDVCFSEV FPDRKGMSGV
160 170 180 190 200
VDYSNYDDMK YAIRKLDATE FRNAFSSAYI RVREYESRSV SRSPDDSKSY
210 220 230 240 250
RSRSRSRGPS CSYSSKSRSV SPARSISPRS RPLSRSRSLY SSVSRSQSRS
260
KSRSRSRSNS PVSPVISG
Length:268
Mass (Da):30,386
Last modified:November 1, 1999 - v1
Checksum:i73BDC3534A8F9AC4
GO
Isoform 2 (identifier: Q9XFR5-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     247-256: QSRSKSRSRS → GSLLRAGDWI
     257-268: Missing.

Note: No experimental confirmation available.
Show »
Length:256
Mass (Da):29,113
Checksum:i834FE60E6E8FC25E
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti110R → H in AAK93589 (PubMed:14593172).Curated1
Sequence conflicti254S → T in AAK93589 (PubMed:14593172).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_054988247 – 256QSRSKSRSRS → GSLLRAGDWI in isoform 2. 1 Publication10
Alternative sequenceiVSP_054989257 – 268Missing in isoform 2. 1 PublicationAdd BLAST12

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ131214 Genomic DNA. Translation: CAB42557.1.
AJ131214 Genomic DNA. Translation: CAB42558.1.
AC003114 Genomic DNA. No translation available.
CP002684 Genomic DNA. Translation: AEE28400.1.
CP002684 Genomic DNA. Translation: AEE28401.1.
AY150486 mRNA. Translation: AAN13011.1.
AY050912 mRNA. Translation: AAK93589.2.
RefSeqiNP_172386.3. NM_100783.6. [Q9XFR5-1]
NP_683288.2. NM_148447.4. [Q9XFR5-2]
UniGeneiAt.419.

Genome annotation databases

EnsemblPlantsiAT1G09140.1; AT1G09140.1; AT1G09140. [Q9XFR5-1]
AT1G09140.2; AT1G09140.2; AT1G09140. [Q9XFR5-2]
GeneIDi837433.
GrameneiAT1G09140.1; AT1G09140.1; AT1G09140.
AT1G09140.2; AT1G09140.2; AT1G09140.
KEGGiath:AT1G09140.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ131214 Genomic DNA. Translation: CAB42557.1.
AJ131214 Genomic DNA. Translation: CAB42558.1.
AC003114 Genomic DNA. No translation available.
CP002684 Genomic DNA. Translation: AEE28400.1.
CP002684 Genomic DNA. Translation: AEE28401.1.
AY150486 mRNA. Translation: AAN13011.1.
AY050912 mRNA. Translation: AAK93589.2.
RefSeqiNP_172386.3. NM_100783.6. [Q9XFR5-1]
NP_683288.2. NM_148447.4. [Q9XFR5-2]
UniGeneiAt.419.

3D structure databases

ProteinModelPortaliQ9XFR5.
SMRiQ9XFR5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi22674. 11 interactors.
IntActiQ9XFR5. 13 interactors.
STRINGi3702.AT1G09140.1.

PTM databases

iPTMnetiQ9XFR5.

Proteomic databases

PaxDbiQ9XFR5.
PRIDEiQ9XFR5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G09140.1; AT1G09140.1; AT1G09140. [Q9XFR5-1]
AT1G09140.2; AT1G09140.2; AT1G09140. [Q9XFR5-2]
GeneIDi837433.
GrameneiAT1G09140.1; AT1G09140.1; AT1G09140.
AT1G09140.2; AT1G09140.2; AT1G09140.
KEGGiath:AT1G09140.

Organism-specific databases

TAIRiAT1G09140.

Phylogenomic databases

eggNOGiKOG0105. Eukaryota.
COG0724. LUCA.
HOGENOMiHOG000276234.
InParanoidiQ9XFR5.
KOiK12890.
OMAiRINVSGF.
OrthoDBiEOG09360OW1.
PhylomeDBiQ9XFR5.

Enzyme and pathway databases

ReactomeiR-ATH-72163. mRNA Splicing - Major Pathway.
R-ATH-72165. mRNA Splicing - Minor Pathway.
R-ATH-72187. mRNA 3'-end processing.

Miscellaneous databases

PROiQ9XFR5.

Gene expression databases

ExpressionAtlasiQ9XFR5. baseline and differential.
GenevisibleiQ9XFR5. AT.

Family and domain databases

Gene3Di3.30.70.330. 2 hits.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 2 hits.
[Graphical view]
SMARTiSM00360. RRM. 2 hits.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 2 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSR30_ARATH
AccessioniPrimary (citable) accession number: Q9XFR5
Secondary accession number(s): Q949S8, Q9XFR6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 9, 2014
Last sequence update: November 1, 1999
Last modified: November 30, 2016
This is version 132 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

The splicing pattern of the pre-mRNA is regulated in a tissue-specific manner and by development, and changes in response to various types of stress treatment (PubMed:10215626, PubMed:17556373, PubMed:17319848) or light regimes (PubMed:24763593).4 Publications
A mobile signal generated in the leaves triggers root alternative splicing responses to light.1 Publication

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.