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UniProtKB - A9LLI7 (RP6L2_ARATH)

Entry version 90 (05 Jun 2019)
Sequence version 1 (05 Feb 2008)
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Protein

Protein RRP6-like 2

Gene

RRP6L2

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>-Experimental evidence at transcript leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Acts as an important epigenetic regulator through multiple silencing mechanisms (PubMed:23555312, PubMed:25211139). Involved in association with RRP6L1 in the silencing of the solo LTR locus. Controls levels of non-coding RNAs (ncRNAs) from the solo LTR locus. Seems to function independently of the RNA-mediated gene silencing (RdDM) pathway (PubMed:23555312). Functions redundantly with RRP6L1 in the regulation of FLC locus. Participates in the maintenance of trimethylated 'Lys-27' (H3K27me3) at FLC locus via the regulation of antisense long non-coding RNAs (lncRNAs) and the regulation of diverse antisense RNAs derived from the FLC locus. Seems not involved in the exosomal RNA degradation (PubMed:25211139). May be involved in poly(A)-mediated RNA degradation (PubMed:18285452).3 Publications

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionExonuclease, Hydrolase, Nuclease
Biological processRNA-mediated gene silencing

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Protein RRP6-like 21 Publication
Short name:
AtRRP6L21 Publication
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:RRP6L21 Publication
Ordered Locus Names:At5g35910Imported
ORF Names:MIK22.22Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiArabidopsis thaliana (Mouse-ear cress)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri3702 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › Gunneridae › Pentapetalae › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000006548 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 5

Organism-specific databases

Arabidopsis Information Portal

More...Araporti		AT5G35910

The Arabidopsis Information Resource

More...TAIRi		locus:2165189 AT5G35910

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the ‘Pathology and Biotech’ section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

No visible phenotype under normal growth conditions (PubMed:18285452, PubMed:25211139). The double mutants rrp6l1 and rrp6l2 have a late flowering phenotype (PubMed:25211139).2 Publications

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004336311 – 870Protein RRP6-like 2Add BLAST870

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...PaxDbi		A9LLI7

PRoteomics IDEntifications database

More...PRIDEi		A9LLI7

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...iPTMneti		A9LLI7

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...ExpressionAtlasi		A9LLI7 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...Genevisiblei		A9LLI7 AT

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		3702.AT5G35910.1

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...SMRi		A9LLI7

Database of comparative protein structure models

More...ModBasei		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini263 – 4283'-5' exonucleaseSequence analysisAdd BLAST166
Domaini479 – 559HRDCPROSITE-ProRule annotationAdd BLAST81

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG2206 Eukaryota
COG0349 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000027797

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		A9LLI7

KEGG Orthology (KO)

More...KOi		K12591

Identification of Orthologs from Complete Genome Data

More...OMAi		MKSKHPY

Database of Orthologous Groups

More...OrthoDBi		677201at2759

Database for complete collections of gene phylogenies

More...PhylomeDBi		A9LLI7

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR002562 3'-5'_exonuclease_dom
IPR012588 Exosome-assoc_fac_Rrp6_N
IPR010997 HRDC-like_sf
IPR002121 HRDC_dom
IPR012337 RNaseH-like_sf

Pfam protein domain database

More...Pfami		View protein in Pfam
PF01612 DNA_pol_A_exo1, 1 hit
PF00570 HRDC, 1 hit
PF08066 PMC2NT, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00474 35EXOc, 1 hit
SM00341 HRDC, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF47819 SSF47819, 1 hit
SSF53098 SSF53098, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS50967 HRDC, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

A9LLI7-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSDGNMDVDE SPVSWKVKSL EKLIDGSSFS STLSRLSSSS RLIPTSRDFH 
        60         70         80         90        100
FYYNFDEFKR PIDEITGTSQ STLATIGDSE QVWGKSMKFP GDVDDVYAED 
       110        120        130        140        150
WLCNVNDELI ERFDVSVDEF QRIRKKEKEI GRSVVADDGD DGFQMVYGKK 
       160        170        180        190        200
KKPVGNVVTG SAAVNGGGSV IDVKMAERDK NSSGKAKVPF HVPTIKKPQE 
       210        220        230        240        250
EYNILVNNAN LPFEHVWLER SEDDLRAMHP LEKFSVLDFV DKDVNEMEPV 
       260        270        280        290        300
KPLPLEQTPF KFVQEVKDLK ELVAKLRSVE EFAVDLEHNQ YRSFQGLTCL 
       310        320        330        340        350
MQISTRTEDY IVDTFKLRIH IGPYLREIFK DPKKKKVMHG ADRDIIWLQR 
       360        370        380        390        400
DFGIYVCNLF DTGQASRVLN LERNSLEFLL QHFCGVTANK EYQNADWRIR 
       410        420        430        440        450
PLPEEMTRYA REDTHYLLYI YDLIKLELQR MAKDDAHTDS PLLEVYKRSY 
       460        470        480        490        500
DVCTQLYEKE LLTENSYLHV YGLQAAGFNA AQLAIVAGLC EWRDFIARAE 
       510        520        530        540        550
DESTGYVLPN KVLLEIAKEM PDSVGKLRRM LKSKHPYIER NVDSVVSVIR 
       560        570        580        590        600
QSMQHYAAFE SAALSLKDVS PGNVMDKNIE PISEKKDLHT GDVASPSLKE 
       610        620        630        640        650
NSSQLESTRD LIMGAANTNE GRGLGSGLFG SAKVSAAVRI SKKPSSGLGA 
       660        670        680        690        700
LLGNAASKKK SRTDEKVKED VKLEQIRSSV NLSFHSFTEK VPDSKSTSET 
       710        720        730        740        750
SPKVYGKPEE MSSTMPASVS KEDGVKELKD DSEEASEIVG TSGRVSESKV 
       760        770        780        790        800
SSSEMGDIIL LENGDEKKVD AEDEPMSLSE LSTNFQKCFK SMNKSKKAQK 
       810        820        830        840        850
QTEFLNIEPF DYEAARKEVK FGEGHKGRQG KREAAAGQKK GSTQEQSEFG 
       860        870
QGKRRQAFPA SGNRSMSFKN
Length:870
Mass (Da):97,889
Last modified:February 5, 2008 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i0283C0DF1EC945C4
GO

<p>This subsection of the ‘Sequence’ section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence BAB09932 differs from that shown. Reason: Erroneous gene model prediction.Curated

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
EU240663 mRNA Translation: ABX52080.1
AB005236, AB025602 Genomic DNA Translation: BAB09932.1 Sequence problems.
CP002688 Genomic DNA Translation: AED94025.1

NCBI Reference Sequences

More...RefSeqi		NP_198440.2, NM_122982.4

Genome annotation databases

Ensembl plant genome annotation project

More...EnsemblPlantsi		AT5G35910.1; AT5G35910.1; AT5G35910

Database of genes from NCBI RefSeq genomes

More...GeneIDi		833577

Gramene; a comparative resource for plants

More...Gramenei		AT5G35910.1; AT5G35910.1; AT5G35910

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ath:AT5G35910

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
EU240663 mRNA Translation: ABX52080.1
AB005236, AB025602 Genomic DNA Translation: BAB09932.1 Sequence problems.
CP002688 Genomic DNA Translation: AED94025.1
RefSeqiNP_198440.2, NM_122982.4

3D structure databases

SMRiA9LLI7
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT5G35910.1

PTM databases

iPTMnetiA9LLI7

Proteomic databases

PaxDbiA9LLI7
PRIDEiA9LLI7

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G35910.1; AT5G35910.1; AT5G35910
GeneIDi833577
GrameneiAT5G35910.1; AT5G35910.1; AT5G35910
KEGGiath:AT5G35910

Organism-specific databases

AraportiAT5G35910
TAIRilocus:2165189 AT5G35910

Phylogenomic databases

eggNOGiKOG2206 Eukaryota
COG0349 LUCA
HOGENOMiHOG000027797
InParanoidiA9LLI7
KOiK12591
OMAiMKSKHPY
OrthoDBi677201at2759
PhylomeDBiA9LLI7

Miscellaneous databases

Protein Ontology

More...PROi		PR:A9LLI7

Gene expression databases

ExpressionAtlasiA9LLI7 baseline and differential
GenevisibleiA9LLI7 AT

Family and domain databases

InterProiView protein in InterPro
IPR002562 3'-5'_exonuclease_dom
IPR012588 Exosome-assoc_fac_Rrp6_N
IPR010997 HRDC-like_sf
IPR002121 HRDC_dom
IPR012337 RNaseH-like_sf
PfamiView protein in Pfam
PF01612 DNA_pol_A_exo1, 1 hit
PF00570 HRDC, 1 hit
PF08066 PMC2NT, 1 hit
SMARTiView protein in SMART
SM00474 35EXOc, 1 hit
SM00341 HRDC, 1 hit
SUPFAMiSSF47819 SSF47819, 1 hit
SSF53098 SSF53098, 1 hit
PROSITEiView protein in PROSITE
PS50967 HRDC, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiRP6L2_ARATH
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: A9LLI7
Secondary accession number(s): Q9FFL2
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 16, 2015
Last sequence update: February 5, 2008
Last modified: June 5, 2019
This is version 90 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
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