Gene Details:

• Gene ID: AT2G27100
• Gene Symbol: SE, SERRATE
• Gene Name: SERRATE,
• Description: C2H2 zinc-finger protein SERRATE (SE);(source:Araport11)
• TAIR Accession: locus:2059294
• Genome: Araport11_genome_release
• Species: Arabidopsis thaliana

Transcripts:

• AT2G27100.1

Plant Ontology Annotations:

• PO:0000037  — shoot axis apex — ápice del epiblasto (epiblastema) (Spanish, exact), シュート頂、茎頂 (Japanese, exact)
• PO:0008019  — leaf lamina base — base de la lámina de la hoja (Spanish, exact), 葉身基部 (Japanese, exact)
• PO:0009005  — root — raíz (Spanish, exact), radices (exact, plural), radix (exact), 根 (Japanese, exact), aerial root (narrow), climbing root (narrow)
• PO:0009006  — shoot system — sistema de epiblasto (epiblastema) (Spanish, exact), シュート系、苗条系 (Japanese, exact), Poaceae crown (related), shoot (related), thalli (related), thallus (related), tree crown (narrow)
• PO:0009009  — plant embryo — embrión (Spanish, exact), 植物胚 (Japanese, exact), germ (related), embryo (broad)
• PO:0009025  — vascular leaf — foliage leaf (exact), hoja vascular (Spanish, exact), leaf, vascular (exact), vascular leaves (exact, plural), 維管束のある葉, または維管束植物の葉 (Japanese, exact), crozier (related), macrophyll (related), megaphyll (related), ascidia (narrow), ascidium (narrow), fiddlehead (narrow), frond (narrow), needle-like leaf (narrow), pitcher (narrow), pitcher blade (narrow), pitcher-blade (narrow), scale-like leaf (narrow), sterile frond (narrow), trophophyll (narrow)
• PO:0009029  — stamen — estambre (Spanish, exact), 雄蕊 (Japanese, exact), Poaceae stamen (narrow), Zea stamen (narrow)
• PO:0009031  — sepal — sépalo (Spanish, exact), がく片 (Japanese, exact)
• PO:0009046  — flower — flor (Spanish, exact), 花 (Japanese, exact), floret (related), Asteraceae floret (narrow), basal flower (narrow), double flower (narrow), hermaphrodite flower (narrow), monoclinous flower (narrow), perfect flower (narrow)
• PO:0009052  — inflorescence flower pedicel — 小花柄 (Japanese, related), pedicelo (Spanish, broad)
• PO:0020030  — cotyledon — cotiledón (Spanish, exact), seed leaf (exact), 子葉 (Japanese, exact)
• PO:0020038  — petiole — pecíolo (Spanish, exact), 葉柄 (Japanese, exact)
• PO:0020100  — hypocotyl — hipocótile (Spanish, exact), 胚軸 (Japanese, exact)
• PO:0020137  — leaf apex — ápice de la hoja (Spanish, exact), 葉先 (Japanese, exact), leaf lamina apex (narrow), phyllid apex (narrow)
• PO:0025022  — collective leaf structure — estructura colectiva de hoja (Spanish, exact), leaf series (exact), 葉が集まった構造 (Japanese, exact), leaf whorl (narrow), rosette (narrow), cycle (broad), verticil (broad)
• PO:0025281  — pollen — polen (Spanish, exact), pollen grain (exact), 花粉 (Japanese, exact)
• PO:0000014  — rosette leaf — hoja en roseta (Spanish, exact), ロゼット葉 (Japanese, exact)
• PO:0009001  — fruit — frucht (exact, German), fruto (exact, Spanish), 果実 (exact, Japanese), coenocarp (narrow), syncarp (narrow), aggregate fruit (broad), compound fruit (broad), dehiscent fruit (broad), diaspore (broad), indehiscent fruit (broad), multiple fruit (broad), propagule (broad)
• PO:0009047  — stem — caña (Spanish, exact), culm (exact), eje primario (Spanish, exact), primary axis (exact), primary stem (exact), tallo (Spanish, exact), tronco (Spanish, exact), 茎 (Japanese, exact), bole (narrow), cane (narrow), caudex (narrow), caudices (narrow), core (narrow), primocane (narrow), scape (narrow), stalk (narrow), trunk (narrow)
• PO:0009049  — inflorescence — inflorescencia (Spanish, exact), 花序 (Japanese, exact), Triticeae spike (narrow)

Gene Ontology:

• GO:0005515  — enables — protein binding
• GO:0003677  — enables — DNA binding
• GO:0010445  — located in — nuclear dicing body
• GO:0008380  — involved in — RNA splicing
• GO:0006355  — acts upstream of or within — regulation of DNA-templated transcription
• GO:0048509  — acts upstream of or within — regulation of meristem development
• GO:0016607  — located in — nuclear speck
• GO:0031053  — involved in — primary miRNA processing
• GO:0031053  — acts upstream of or within — primary miRNA processing
• GO:0048367  — acts upstream of or within — shoot system development
• GO:0005730  — located in — nucleolus
• GO:2000011  — acts upstream of or within — regulation of adaxial/abaxial pattern formation
• GO:0000381  — acts upstream of or within — regulation of alternative mRNA splicing, via spliceosome
• GO:0010267  — acts upstream of or within — ta-siRNA processing
• GO:0005634  — located in — nucleus
• GO:0016604  — is active in — nuclear body
• GO:0003700  — enables — DNA-binding transcription factor activity
• GO:0005846  — part of — nuclear cap binding complex

Function-related keywords:

• shoot axis apex ,  leaf lamina base ,  root ,  shoot system ,  plant embryo ,  vascular leaf ,  stamen ,  sepal ,  flower ,  inflorescence flower pedicel ,  cotyledon ,  petiole ,  hypocotyl ,  leaf apex ,  collective leaf structure ,  pollen ,  rosette leaf ,  fruit ,  root ,  flower ,  stem ,  inflorescence

Literature:

• The SERRATE locus controls the formation of the early juvenile leaves and phase length in Arabidopsis.   DOI:  10.1046/j.1365-313x.1999.00623.x ;  PMID:  10607301
• Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.   DOI:  10.1126/science.290.5499.2105 ;  PMID:  11118137
• Mechanisms that control knox gene expression in the Arabidopsis shoot.   DOI:  10.1242/dev.127.24.5523 ;  PMID:  11076771
• The arabidopsis serrate gene encodes a zinc-finger protein required for normal shoot development.   DOI:  10.1105/tpc.13.6.1263 ;  PMID:  11402159
• Lesions in the mRNA cap-binding gene ABA HYPERSENSITIVE 1 suppress FRIGIDA-mediated delayed flowering in Arabidopsis.   DOI:  10.1111/j.1365-313X.2004.02194.x ;  PMID:  15361145
• SERRATE is a novel nuclear regulator in primary microRNA processing in Arabidopsis.   DOI:  10.1111/j.1365-313X.2006.02835.x ;  PMID:  16889646
• SERRATE: a new player on the plant microRNA scene.   DOI:  10.1038/sj.embor.7400806 ;  PMID:  16977334
• Identification of nuclear dicing bodies containing proteins for microRNA biogenesis in living Arabidopsis plants.   DOI:  10.1016/j.cub.2007.04.005 ;  PMID:  17442570
• SERRATE coordinates shoot meristem function and leaf axial patterning in Arabidopsis.   DOI:  10.1038/nature04052 ;  PMID:  16222298
• Simulations of virtual plants reveal a role for SERRATE in the response of leaf development to light in Arabidopsis thaliana.   DOI:  10.1111/j.1469-8137.2007.02123.x ;  PMID:  17635222
• Location of a possible miRNA processing site in SmD3/SmB nuclear bodies in Arabidopsis.   DOI:  10.1093/pcp/pcm099 ;  PMID:  17675322
• ARS2 is a conserved eukaryotic gene essential for early mammalian development.   DOI:  10.1128/MCB.01565-07 ;  PMID:  18086880
• Site-specific phosphorylation profiling of Arabidopsis proteins by mass spectrometry and peptide chip analysis.   DOI:  10.1021/pr8000173 ;  PMID:  18433157
• Dual roles of the nuclear cap-binding complex and SERRATE in pre-mRNA splicing and microRNA processing in Arabidopsis thaliana.   DOI:  10.1073/pnas.0802493105 ;  PMID:  18550839
• Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection.   DOI:  10.1104/pp.108.121038 ;  PMID:  18650403
• The FHA domain proteins DAWDLE in Arabidopsis and SNIP1 in humans act in small RNA biogenesis.   DOI:  10.1073/pnas.0804218105 ;  PMID:  18632581
• The RNA-binding proteins HYL1 and SE promote accurate in vitro processing of pri-miRNA by DCL1.   DOI:  10.1073/pnas.0803356105 ;  PMID:  18632569
• Two cap-binding proteins CBP20 and CBP80 are involved in processing primary MicroRNAs.   DOI:  10.1093/pcp/pcn146 ;  PMID:  18829588
• Histone acetyltransferase GCN5 interferes with the miRNA pathway in Arabidopsis.   DOI:  10.1038/cr.2009.59 ;  PMID:  19436261
• Dissection of the complex phenotype in cuticular mutants of Arabidopsis reveals a role of SERRATE as a mediator.   DOI:  10.1371/journal.pgen.1000703 ;  PMID:  19876373
• Structure determinants for accurate processing of miR172a in Arabidopsis thaliana.   DOI:  10.1016/j.cub.2009.10.073 ;  PMID:  20015654
• BROTHER OF FT AND TFL1 (BFT) has TFL1-like activity and functions redundantly with TFL1 in inflorescence meristem development in Arabidopsis.   DOI:  10.1111/j.1365-313X.2010.04234.x ;  PMID:  20409005
• Structure of Arabidopsis HYPONASTIC LEAVES1 and its molecular implications for miRNA processing.   DOI:  10.1016/j.str.2010.02.006 ;  PMID:  20462493
• Characterization of EMU, the Arabidopsis homolog of the yeast THO complex member HPR1.   DOI:  10.1261/rna.2265710 ;  PMID:  20668032
• Molecular insights into plant cell proliferation disturbance by Agrobacterium protein 6b.   DOI:  10.1101/gad.1985511 ;  PMID:  21156810
• Genome-wide network model capturing seed germination reveals coordinated regulation of plant cellular phase transitions.   DOI:  10.1073/pnas.1100958108 ;  PMID:  21593420
• Molecular insights into miRNA processing by Arabidopsis thaliana SERRATE.   DOI:  10.1093/nar/gkr428 ;  PMID:  21685453
• An importin β protein negatively regulates MicroRNA activity in Arabidopsis.   DOI:  10.1105/tpc.111.091058 ;  PMID:  21984696
• SERRATE is required for intron suppression of RNA silencing in Arabidopsis.   DOI:  10.4161/psb.6.12.18238 ;  PMID:  22112452
• Genome-wide analysis uncovers regulation of long intergenic noncoding RNAs in Arabidopsis.   DOI:  10.1105/tpc.112.102855 ;  PMID:  23136377
• STA1, an Arabidopsis pre-mRNA processing factor 6 homolog, is a new player involved in miRNA biogenesis.   DOI:  10.1093/nar/gks1309 ;  PMID:  23268445
• NOT2 proteins promote polymerase II-dependent transcription and interact with multiple MicroRNA biogenesis factors in Arabidopsis.   DOI:  10.1105/tpc.112.105882 ;  PMID:  23424246
• A role for the RNA-binding protein MOS2 in microRNA maturation in Arabidopsis.   DOI:  10.1038/cr.2013.23 ;  PMID:  23399598
• Fast-forward genetics identifies plant CPL phosphatases as regulators of miRNA processing factor HYL1.   DOI:  10.1016/j.cell.2012.09.039 ;  PMID:  23141542
• RACK1 scaffold proteins influence miRNA abundance in Arabidopsis.   DOI:  10.1111/tpj.12308 ;  PMID:  23941160
• Dissecting the interactions of SERRATE with RNA and DICER-LIKE 1 in Arabidopsis microRNA precursor processing.   DOI:  10.1093/nar/gkt667 ;  PMID:  23921632
• The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana.   DOI:  10.1093/nar/gkt894 ;  PMID:  24137006
• The rolB gene activates the expression of genes encoding microRNA processing machinery.   DOI:  10.1007/s10529-014-1743-7 ;  PMID:  25491479
• Functional mapping of the plant small RNA methyltransferase: HEN1 physically interacts with HYL1 and DICER-LIKE 1 proteins.   DOI:  10.1093/nar/gkv102 ;  PMID:  25680966
• The RNA-binding protein HOS5 and serine/arginine-rich proteins RS40 and RS41 participate in miRNA biogenesis in Arabidopsis.   DOI:  10.1093/nar/gkv751 ;  PMID:  26227967
• Homodimerization of HYL1 ensures the correct selection of cleavage sites in primary miRNA.   DOI:  10.1093/nar/gku907 ;  PMID:  25294831
• Pre-microRNA processing activity in nuclear extracts from Arabidopsis suspension cells.   DOI:  10.1007/s10265-016-0874-4 ;  PMID:  27885505
• HIGLE is a bifunctional homing endonuclease that directly interacts with HYL1 and SERRATE in Arabidopsis thaliana.   DOI:  10.1002/1873-3468.12628 ;  PMID:  28321834
• A Global View of RNA-Protein Interactions Identifies Post-transcriptional Regulators of Root Hair Cell Fate.   DOI:  10.1016/j.devcel.2017.03.018 ;  PMID:  28441533
• Arabidopsis thaliana miRNAs promote embryo pattern formation beginning in the zygote.   DOI:  10.1016/j.ydbio.2017.09.009 ;  PMID:  28912016
• Annotating and quantifying pri-miRNA transcripts using RNA-Seq data of wild type and serrate-1 globular stage embryos of Arabidopsis thaliana.   DOI:  10.1016/j.dib.2017.10.019 ;  PMID:  29124087
• SWI2/SNF2 ATPase CHR2 remodels pri-miRNAs via Serrate to impede miRNA production.   DOI:  10.1038/s41586-018-0135-x ;  PMID:  29769717
• Regulation of Plant Microprocessor Function in Shaping microRNA Landscape.   DOI:  10.3389/fpls.2018.00753 ;  PMID:  29922322
• Arabidopsis Serrate Coordinates Histone Methyltransferases ATXR5/6 and RNA Processing Factor RDR6 to Regulate Transposon Expression.   DOI:  10.1016/j.devcel.2018.05.023 ;  PMID:  29920280
• SMA1, a homolog of the splicing factor Prp28, has a multifaceted role in miRNA biogenesis in Arabidopsis.   DOI:  10.1093/nar/gky591 ;  PMID:  29982637
• Arabidopsis RNA processing factor SERRATE regulates the transcription of intronless genes.   DOI:  10.7554/eLife.37078 ;  PMID:  30152752
• Gene regulation by translational inhibition is determined by Dicer partnering proteins.   DOI:  10.1038/nplants.2014.27 ;  PMID:  27246880
• Detection of MicroRNA Processing Intermediates Through RNA Ligation Approaches.   DOI:  10.1007/978-1-4939-9042-9_20 ;  PMID:  30701507
• Alternative use of miRNA-biogenesis co-factors in plants at low temperatures.   DOI:  10.1242/dev.172932 ;  PMID:  30760482
• Genome-wide identification of EMBRYO-DEFECTIVE (EMB) genes required for growth and development in Arabidopsis.   DOI:  10.1111/nph.16071 ;  PMID:  31334862
• Deficiency in the double-stranded RNA binding protein HYPONASTIC LEAVES1 increases sensitivity to the endoplasmic reticulum stress inducer tunicamycin in Arabidopsis.   DOI:  10.1186/s13104-019-4623-3 ;  PMID:  31521187
• Light Triggers the miRNA-Biogenetic Inconsistency for De-etiolated Seedling Survivability in Arabidopsis thaliana.   DOI:  10.1016/j.molp.2019.10.011 ;  PMID:  31678531
• Dual function of HYPONASTIC LEAVES 1 during early skotomorphogenic growth in Arabidopsis.   DOI:  10.1111/tpj.14681 ;  PMID:  31922639
• The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana.   DOI:  10.1093/nar/gkaa045 ;  PMID:  31956909
• Current Perspectives on the Auxin-Mediated Genetic Network that Controls the Induction of Somatic Embryogenesis in Plants.   DOI:  10.3390/ijms21041333 ;  PMID:  32079138
• SERRATE interacts with the nuclear exosome targeting (NEXT) complex to degrade primary miRNA precursors in Arabidopsis.   DOI:  10.1093/nar/gkaa373 ;  PMID:  32449937
• The Intrinsically Disordered Protein CARP9 Bridges HYL1 to AGO1 in the Nucleus to Promote MicroRNA Activity.   DOI:  10.1104/pp.20.00258 ;  PMID:  32636339
• Linking key steps of microRNA biogenesis by TREX-2 and the nuclear pore complex in Arabidopsis.   DOI:  10.1038/s41477-020-0726-z ;  PMID:  32690891
• AGL15 Controls the Embryogenic Reprogramming of Somatic Cells in Arabidopsis through the Histone Acetylation-Mediated Repression of the miRNA Biogenesis Genes.   DOI:  10.3390/ijms21186733 ;  PMID:  32937992
• Phase separation of SERRATE drives dicing body assembly and promotes miRNA processing in Arabidopsis.   DOI:  10.1038/s41556-020-00606-5 ;  PMID:  33288888
• DEAD-BOX RNA HELICASE 27 regulates microRNA biogenesis, zygote division, and stem cell homeostasis.   DOI:  10.1093/plcell/koaa001 ;  PMID:  33751089
• Functional characterization of the Arabidopsis SERRATE under salt stress.   DOI:  10.1016/j.pld.2020.06.010 ;  PMID:  33778227
• DEAD-box helicases modulate dicing body formation in Arabidopsis.   DOI:  10.1126/sciadv.abc6266 ;  PMID:  33910901
• Serrate-Associated Protein 1, a splicing-related protein, promotes miRNA biogenesis in Arabidopsis.   DOI:  10.1111/nph.17691 ;  PMID:  34449907
• PRP4KA phosphorylates SERRATE for degradation via 20S proteasome to fine-tune miRNA production in Arabidopsis.   DOI:  10.1126/sciadv.abm8435 ;  PMID:  35333566
• Chromatin-associated microprocessor assembly is regulated by the U1 snRNP auxiliary protein PRP40.   DOI:  10.1093/plcell/koac278 ;  PMID:  36087009
• An antisense intragenic lncRNA SEAIRa mediates transcriptional and epigenetic repression of SERRATE in Arabidopsis.   DOI:  10.1073/pnas.2216062120 ;  PMID:  36857348
• SERRATE: a key factor in coordinated RNA processing in plants.   DOI:  10.1016/j.tplants.2023.03.009 ;  PMID:  37019716
• Solution structure and behaviour of the Arabidopsis thaliana HYL1 protein.   DOI:  10.1016/j.bbagen.2023.130376 ;  PMID:  37150226
• Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.   DOI:  10.1126/science.290.5499.2105 ;  PMID:  11118137
• The Arabidopsis thaliana chloroplast proteome reveals pathway abundance and novel protein functions.   DOI:  10.1016/j.cub.2004.02.039 ;  PMID:  15028209
• Proteomic analysis of the Arabidopsis nucleolus suggests novel nucleolar functions.   DOI:  10.1091/mbc.e04-09-0791 ;  PMID:  15496452
• SERRATE coordinates shoot meristem function and leaf axial patterning in Arabidopsis.   DOI:  10.1038/nature04052 ;  PMID:  16222298
• Site-specific phosphorylation profiling of Arabidopsis proteins by mass spectrometry and peptide chip analysis.   DOI:  10.1021/pr8000173 ;  PMID:  18433157

Sequences: