FANG Shu-mei,HAN Yi-qiang,ZHANG Wen-hui,et al.Bioinformatics Analysis on 5′ Regulatory Region Sequence of DNA Demethylatase Gene IDM1 in Soybean[J].Soybean Science,2014,33(04):483-487.[doi:10.11861/j.issn.1000-9841.2014.04.0483]
大豆DNA去甲基化酶IDM1基因5′调控区生物信息学分析
- Title:
- Bioinformatics Analysis on 5′ Regulatory Region Sequence of DNA Demethylatase Gene IDM1 in Soybean
- Keywords:
- Soybean; DNA demethylatase; IDM1; Bioinformatics
- 分类号:
- S565.1
- 文献标志码:
- A
- 摘要:
- 利用生物信息学方法分析了IDM1基因在大豆中的存在状况及其5′调控区的启动子序列、甲基化位点及转录因子结合位点的分布情况。结果表明：IDM1基因在大豆中存在2个拷贝Glyma12g35760和Glyma13g34641，并且在表达时存在选择性剪接。对5′端的-2 000～200 bp序列分析发现，Glyma12g35760存在1段可能的启动子序列，1个CpG岛，大小为133 bp，位于495～627核酸序列之间，存在5个可能的转录因子结合位点，转录因子有SBF-1和athb-1两种；Glyma13g34641存在8段可能的启动子序列，无CpG岛，存在6个可能的转录因子结合位点，转录因子有P，SBF-1，MYB.Ph。该分析结果可为IDM1基因在大豆中的试验研究提供有价值的参考。
- Abstract:
- The condition of IDM1 gene in soybean was investigated,and the promoter sequences,methylation sites and transcription factor binding sites of 5′ regulatory region were analyzed by bioinformatics methods.The results indicated that IDM1 gene contained two copies of Glyma12g35760 and Glyma13g34641 in soybean and alternative splicing occurred during gene expression.Glyma12g35760 may had one promoter sequence,one CpG isoland with 133 bp length between 495-627 nucleotides.There were five potential transcription factor binding sites combined two transcription factors of SBF-1 and athb-1.Glyma12g35760 may contain eight promoter sequences but no CpG isoland.There were six potential transcription factor binding sites combined three transcription factors of P,SBF-1 and MYB.Ph.These results can provide very valuable information for experimental research of IDM1 gene in soybean.
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备注/Memo
基金项目：国家自然科学基金（31201163）；黑龙江省教育厅科学技术研究项目（12521381）；国家级大学生创业训练计划项目（201310223001）。