序列比對和序列特征分析總目錄
1 ncRNAdb(noncoding RNA database)
雖不編碼蛋白質(zhì)，但是參與包括染色質(zhì)結(jié)構(gòu)重建，基因表達層面的轉(zhuǎn)錄和翻譯調(diào)控，亞細胞位置等調(diào)控。主要來自于
1 主要：ncRNAdb -- Noncoding regulatory RNAs database：通過以下方式獲取
Search search by organism name, RNA symbol or GenBank accession number
BLAST BLAST your sequence against the ncRNAdb (over 30,000 sequences; 66,4 MB)
Browse Information pages
Download Download the sequences in FASTA format
2 哺乳動物RNAdb: mammalian noncoding RNA database
3 fRNAdb: functional RNA database
4 Rfam: database of noncoding RNA families
5 miRBase: microRNA database
- 可檢索公開發(fā)表的miRNA序列和注釋信息
- 可獲得和下載miRNA的發(fā)卡和成熟序列
- 可下載miRBase中所有序列和注釋
-用戶可以注冊提交新miRNA,可命名 - 可以通過miRBase連接到microCom獲取預測的靶基因
ps，順便安利一個關(guān)于miRNA的不錯的網(wǎng)站tools4mirs
The miRBase database is a searchable database of published miRNA sequences and annotation. Each entry in the miRBase Sequence database represents a predicted hairpin portion of a miRNA transcript (termed mir in the database), with information on the location and sequence of the mature miRNA sequence (termed miR). Both hairpin and mature sequences are available for searching and browsing, and entries can also be retrieved by name, keyword, references and annotation. All sequence and annotation data are also available for download.
6 tRNA database
7 UTRdb/UTRsite真核生物mRNA 5'和3'端非翻譯區(qū)序列的非冗余數(shù)據(jù)庫
The 5' and 3' untranslated regions of eukaryotic mRNAs play crucial roles in the posttranscriptional regulation of gene expression through the modulation of nucleo-cytoplasmic mRNA transport, translation efficiency, subcellular localization and message stability. UTRdb is a curated database of 5' and 3' untranslated sequences of eukaryotic mRNAs, derived from several sources of primary data. Experimentally validated functional motifs are annotated and also collated as the UTRsite database where more specific information on the functional motifs and cross-links to interacting regulatory protein are provided. In the current update the UTR entries have been organized in a gene-centric structure to better visualize and retrieve 5' and 3'UTR variants generated by alternative initiation and termination of transcription and alternative splicing. Experimentally validated miRNA targets and conserved sequence elements are also annotated. The integration of UTRdb with genomic data has allowed the implementation of an efficient annotation system and a powerful retrieval resource for the selection and extraction of specific UTR subsets.
