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Exon-intron structure

Tìm thấy 11+ kết quả cho từ khóa "Exon-intron structure"

Genome-wide identification and expression patterns analysis of the RPD3/HDA1 gene family in cotton

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(b) Exon-intron structure analysis of 54 cotton RPD3 genes. (c) The 10 conversed protein motifs of RPD3 genes are indicated by different colored boxes.

Genome-wide identification and expression analysis of the B-box transcription factor gene family in grapevine (Vitis vinifera L.)

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Analysis of exon-intron structure and conserved motifs Exon-intron structures of the confirmed BBX genes were determined according to the alignments of their coding sequences and genomic full-length sequences in the Grapevine Genome (12X) database ( https://www.. TBtools software was used to draw the map of the conserved motif [58].. The transient expression of the fused proteins was observed by a laser scanning confocal microscope (Olym- pus FV3000, Japan) after 3 d at room temperature.

Illuminating the dark side of the human transcriptome with long read transcript sequencing

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When we compared the TAMA High annotation to the Ensembl annotation using the same method, we found 23,542 3′ exon-intron structure matching tran- script models. Out of those matching models showed the TAMA High models as having the longer 5′ representation with 3521 models (15%) having additional 5′ exons. Comparing the Polish pipeline an- notation to the Ensembl annotation using the same method, we found 26,186 3′ exon-intron structure matching transcript models.

Genome-wide identification of the restorerof-fertility-like (RFL) gene family in Brassica napus and expression analysis in Shaan2A cytoplasmic male sterility

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Next, we determined the exon-intron structure of the BnRFL genes and a few known restorer genes (Add- itional file 1). Most of the BnRFLs were intron-less, simi- lar to the restorer genes, such as Rf4, Rf5 and Rf6, in rice CMS line. Of the 53 BnRFL genes, 10 contained a single intron, similar to the Rf genes, Rfk1, Rfob and orf687, in radish.

Genome-wide identification and expression analysis of the NAC transcription factor family in tomato (Solanum lycopersicum) during aluminum stress

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As expected, the closely-related members in the phylogenetic tree generally had mutual motif compositions and only minor differences were ob- served at subgroup levels (Fig. 1 Phylogenetic analysis of tomato (Solanum lycopersicum) NACs (SlNACs). 2 The exon-intron structure of SlNAC genes in accordance to the phylogenetic relationship. Exon-intron structure analysis of SlNAC genes was performed by using the online tool GSDS.

Identification, evolution, expression, and docking studies of fatty acid desaturase genes in wheat (Triticum aestivum L.)

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Based on the analysis of the exon-intron structure of the FAD gene family, they had 0 to 10 introns with high structural diversity (Fig. The longest intron is related to the TaFAD2.7 gene. phase one, splicing after the first nucleotide of the codon. Most of the genes in this family have phases zero and two, whereas TaFAD6.1–2 and TaFAB2.4 genes have all three intron splicing phases. In TaFAB2.13, TaFAB2.18, TaFAB2.22a, TaFAB2.15, and.

Genome-wide characterization of 2- oxoglutarate and Fe(II)-dependent dioxygenase family genes in tomato during growth cycle and their roles in metabolism

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Gene structure and protein motif analysis of Sl2ODDs To gain further insight into the structural diversity of to- mato 2ODDs, we used the online software GSDS 2.0 to analyze the exon-intron structure of 2ODDs based on the genome sequence and the corresponding coding DNA sequences of the 2ODDs in tomato (Fig.

Genome-wide investigation of the heat shock transcription factor (Hsf) gene family in Tartary buckwheat (Fagopyrum tataricum)

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We compared several protein sequences, and the exon-intron structures of the FtHsf genes were understood by comparing the predicted cod- ing sequence with the corresponding full-length se- quence by the Gene Structure Display Server online program. Eventually, we have known ten conserved mo- tifs of the recognized Hsf proteins according to the MEME online program.

Genome-wide analysis of wheat DNAbinding with one finger (Dof) transcription factor genes: Evolutionary characteristics and diverse abiotic stress responses

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Expression of TaDof genes in different organs and developmental stages. b Exon-intron structures of the TaDof genes. Table 1 Functional divergence between subfamilies of the TaDof gene family. 5 Protein sequences and model building of the 3D structure of TaDof6. genes that were significantly expressed in all stages of the stem growth, and generally with a low expression in root and high expression in seeds at two and 14 days post anthesis (DPA).

Evolutionary research on the expansin protein family during the plant transition to land provides new insights into the development of Tartary buckwheat fruit

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Prediction of the exon-intron structures of Tartary buckwheat expansin genes was performed using the online Gene Structure Display Service 2.0 (http://gsds.gao- lab.org/) and was visualized by TBtools v1.082. The number indicates the phases of the corresponding introns. b The motif compositions of the Tartary buckwheat expansin proteins.

A comprehensive analysis of cotton VQ gene superfamily reveals their potential and extensive roles in regulating cotton abiotic stress

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Motif compositions and exon-intron structures of the VQs were shown in Fig. Combining the phylo- genetic data groups of the four Gossypium VQs, we. 1 The VQ gene family evolutionary relationship and the number details of the 15 plant species. The left of this figure shows the evolutionary relationships of the species. the right of this figure shows the number details of the VQ family of each group.

Massive expansion and diversity of nicotinic acetylcholine receptors in lophotrochozoans

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Exon-intron structure analysis revealed large numbers of intronless nAChR genes in molluscs. The number of intronless nAChR genes in molluscs ranged from 11 to 120, while intronless nAChRs were not observed in H..

Identification and expression analysis of GRAS transcription factors in the wild relative of sweet potato Ipomoea trifida

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We firstly investigated the phylogeny, chromosomal locations and exon/intron structure of GRAS transcription factors in I.. Our work will provide evi- dence for further study of GRAS gene function and sweet potato breeding.. Identification of GRAS genes in I. Chromosomal location and exon – intron structures analysis of GRAS members in I. We mapped the genetic linkage map of GRAS genes in the whole I. Phylogenetic analysis of GRAS proteins.

MAPK cascade gene family in Camellia sinensis: In-silico identification, expression profiles and regulatory network analysis

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Motif composition and gene structure analysis of the MKK and MPK genes. To analyse the sequential characteristics of MKK and MPK genes from tea plant, a correlative study of the conserved motifs from the protein sequences in A. Also, the visualization and analysis of intron and exon structures of MKK and MPK genes was carried. 3 The exon/intron structure of (a) MKK and (b) MPK genes in C.

Genome-wide study of pineapple (Ananas comosus L.) bHLH transcription factors indicates that cryptochrome-interacting bHLH2 (AcCIB2) participates in flowering time regulation and abiotic stress response

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Exon-intron structure of pineapple bHLH genes. The sequence information for each motif is provided in the bottom box. The expression profile of pineapple bHLH genes in different tissue and developmental stages. Details of the samples are: sepal Se1 – Se4, gynoecium Gy1- Gy7, ovule Ov1 – Ov7, petal. List of primers used in the present study.. Protein sequences analysed in the present study.. DNA sequences analysed in the present study..

Genome-wide identification of CNGC genes in Chinese jujube (Ziziphus jujuba Mill.) and ZjCNGC2 mediated signalling cascades in response to cold stress

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The intron/exon structure information of ZjCNGCs was obtained from the NCBI database, and the detailed exon/intron structures of the ZjCNGCs were con- structed with Gene Structure Display Server (GSDS 2.0;. To confirm the struc- tural divergence of the ZjCNGC protein sequences, the conserved motifs in the ZjCNGC protein sequences were identified with the MEME (Multiple Expectation Maximization for Motif Elicitation) web server (http://.

Polyploidization and pseudogenization in allotetraploid frog Xenopus laevis promote the evolution of aquaporin family in higher vertebrates

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The exon/intron structures of the AQP genes in Xla and Xtr genome were analyzed by the online service named Gene Structure Display Server (GSDS 2.0) following the gene annotation and position files [46]. In addition, the deletion of the orthologs copies of the AQP genes in Xla were further analyzed based on the synteny analysis results. The three-dimensional structures of the identified AQPs in Xla were predicted using the online service named Swiss-model [48].

Genome-wide identification, evolution and expression analysis of the aspartic protease gene family during rapid growth of moso bamboo (Phyllostachys edulis) shoots

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We further analyzed the exon/intron structure of the 129 PhAP genes (Fig. The gene structure of the category A genes was diverse (Fig. We herein filtered cis - elements of upstream sequences of the 129 PhAP genes (Fig. 4 Phylogenetic tree of PhAP s as well as protein motifs and gene structure of corresponding PhAP genes from moso bamboo. These results suggested that PhAP s may be widely involved in development and responses to environmental changes in moso bamboo..

Genome-wide identification and transcript analysis of TCP transcription factors in grapevine

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As expected, most of VvTCP genes within same subfamily exhibited similar distribution patterns of exon/intron in terms of exon length and intron number, which supported the classification of subclade and evolutionary relationship (Fig.

Genome-wide investigation of calciumdependent protein kinase gene family in pineapple: Evolution and expression profiles during development and stress

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Phylogenetic analysis, gene structure of CPK genes and their chromosomal location. CPK genes were grouped into four sub- families, including 5, 4, 6 and 2 members in group I, II, III, and IV, respectively (Fig. 1 and Additional file 4:. To obtain the possible structural evolution of CPK genes in the pineapple genome, diverse exon-intron or- ganizations of AcoCPKs were compared. Genes in the same subfamily shared very similar exon-intron struc- tures.