Cis-acting element prediction

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August undefined, 2024

WebJan 21, 2024 · Cis-acting element prediction showed that PvCML contained elements related to growth and development, response to abiotic stress and hormones. Moreover, the majority of PvCMLs showed different ... WebAdditionally, cis-acting elements related to hormone, abiotic stress and light were found in the promoter region of JmjC genes. Several JmjC genes were regulated under abscisic acid (ABA) and methyl jasmonate (MeJA) ... cis-acting element prediction of JmjC gene promoter in moso bamboo. The 2 kb sequences upstream of the start codon ...

Identification and validation of promoters and cis-acting …

WebMay 6, 2005 · Search for documented motifs found in plant cis-acting regulatory DNA elements. Highlights: As of 2003, over 380 motifs and their variants were extracted … WebPLACE is a database of motifs found in plant cis-acting regulatory DNA elements, which were collected from previously published reports. It originally covered vascular plants … chs to dubai

Genome-wide identification, classification and expression analysis …

WebMar 2, 2024 · The mature sequences and precursor sequences were subjected to phylogenetic analysis to reconstruct evolutionary trees, as well as secondary structure analysis of the precursor sequence, and prediction of target genes. The cis-acting elements in the miR399 promoter were predicted and the cleavage effect of grape … WebAug 26, 2024 · PIN-formed (PIN) proteins are important auxin carriers that participate in the polar distribution of auxin in plants. In this study, 16 ZaPIN genes were identified from the whole genome of Zanthoxylum armatum DC. The physicochemical properties and structure of PIN proteins were determined, and the gene sequences and promoter regions were … WebJul 11, 2003 · These TFs bind to the DNA on specific cis-acting regulatory elements (CAREs) and orchestrate the initiation of transcription, which is one of the most important control points in the regulation of gene expression. ... Flow chart of the computational approaches to detect promoters and cis-regulatory elements. 1, Promoter prediction … descriptive cataloging meaning

Genome-wide identification and expression analysis of

Prediction of cis-acting elements of ZmC4 NADP-ME promoter.

WebMay 4, 2024 · The cis-acting regulatory elements were searched for further studying the underlying molecular mechanisms of SmGATAs in response to various stresses. The types and numbers of cis-acting regulatory elements varied in SmGATA genes ( Supplementary Materials 4: Table S4 ), and the core CAAT box and TATA box account for a relatively … WebSequence-specific transcription factors (TFs) regulate gene expression by binding to cis-regulatory elements in promoter and enhancer DNA. While studies of TF-DNA binding … descriptive anlysisWebIdentification of cis- and trans-elements of input gene. 2. Construction of gene regulatory networks by using coexpression analysis. 3. Visualization of experimental regulatory factor binding sites in JBrowse. ... Additionally, this new version increased 2,449 matrices … Features: PlantPAN 2.0: PlantPAN (old) AtPAN: NewPLACE: AGRIS: JASPAR: … If your resolution is not 1680 x 1050, you can resize your web page for optimal … descriptive and prescriptive approaches

"WebApr 7, 2024 · The prediction results of the cis-acting regulatory elements in the promoter region show that all BvSUTs contain light-responsive elements. Among them, the promoter regions of BvSUT2 , BvSUT4 and BvSUT8 have predicted binding sites of AT-rich DNA binding proteins (ATBP-1) ( Figure 5 ). " - Cis-acting element prediction

Cis-acting element prediction

Rare Variants Residing in Novel Cis-Acting Element in Visual …

WebCis-acting element prediction showed that there were many photoresponsive elements upstream of the cotton GGPS gene promoter. In the process of plant evolution, complex mechanisms can be formed to sense light intensity and other factors and affect a series of developmental events, such as seed germination and seedling formation [ 45 ].

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WebWe present a computational pipeline to predict cis-regulatory elements composing results based on different algorithms: Clover, Cluster-Buster, an own implementation of human/rat/mouse sequence identity and our ITB algorithm. The procedure uses information from the human genome sequence, NCBI gene annotations, verified eukaryotic … WebApr 7, 2024 · The prediction results of the cis-acting regulatory elements in the promoter region show that all BvSUTs contain light-responsive elements. Among them, the …

WebOct 7, 2024 · Cis-acting element prediction results showed that the two gene families had similar responses to hormones and had the most responsive elements responsive to ABA followed by ethylene responsive. WebCis-regulatory elements (CREs) ... Other programs created for the identification and prediction of cis-regulatory modules include: ... An example of a cis-acting regulatory sequence is the operator in the lac operon. This DNA sequence is bound by the lac repressor, which, in turn, prevents transcription of the adjacent genes on the same DNA ...

WebIn silico analysis of the rare variants and identification of cis-acting elements was determined using Human Splicing Finder (HSF), ESE finder, RESCUE-ESE and through … WebSep 1, 2024 · Cis-acting elements analysis suggested that most OsIDD gene transcripts could be induced by various abiotic stresses and phytohormones. ... More importantly, their expression profiles in different tissues/organs and cis-acting elements prediction, and interaction histone modifiers information were determined. Based on phylogenetic …

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WebCis-regulatory elements are often binding sites for one or more trans-acting factors. To summarize, cis-regulatory elements are present on the same molecule of DNA as the … chs to honoluluWebDec 23, 2024 · First, we have proposed an economical and efficient calculation method to predict a subclass of auxin response genes that combined the methods in recent similar studies [18,23] with the powerful computer programme, PRECISE (Prediction of Regulatory CIS-acting Elements), in the prediction of regulatory elements. Our method aims at … chs to ewr directWebSep 22, 2013 · Background Cis-acting elements are essential genomic sequences that control gene expression. In higher eukaryotes, a series of cis-elements function … chs to hdnWebIn silico analysis of the rare variants and identification of cis-acting elements was determined using Human Splicing Finder (HSF), ESE finder, RESCUE-ESE and through Exon- Identity Element (EIEs) prediction software suits, combined with various algorithms to identify the effect of variations in splicing motifs; (3) Results: Screening of VSX1 ... chs to hilton headWebFeb 7, 2024 · Regulation of alternative splicing involves cis-acting elements, such as exonic/intronic splicing enhancers/silencers (ESE/S, ISE/S), and trans-acting factors, … chs to gdlWebJun 22, 2024 · Additionally, cis-acting element prediction shows that all BnaDELLA genes contain light, stress, and hormone-responsive elements on their promoters. The gene ontology (GO) enrichment report indicated that the BnaDELLA gene family might regulate stress responses. Combine with transcriptomic data used in this study, we detected the … descriptive annotated bibliography exampleWebDatabase of motifs found in plant cis-acting regulatory DNA elements, all from previously published reports. It covers vascular plants only. Place contains a useful signal scan … chs to harrisburg pa