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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagttgtcgcttcttccaggttacttgtttctcactaccaacagGTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGCAAAAAAGCCAGCGAGGACTTGAAGTGGGCTCTGATGAAAATCGATGAAG

Basic information

species Selaginella moellendorffii
transcript EFJ32471
intron # 1
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|169072186|gb|FE479942.1|FE479942
EST:     CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAG                         GTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
genomic: CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAGgtaaagttgt ... ctaccaacagGTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
EST: gi|169072187|gb|FE479943.1|FE479943
EST:     CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAG                         GTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
genomic: CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAGgtaaagttgt ... ctaccaacagGTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
EST: gi|169116504|gb|FE517529.1|FE517529
EST:     CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAG                         GTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
genomic: CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAGgtaaagttgt ... ctaccaacagGTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
EST: gi|169116505|gb|FE517530.1|FE517530
EST:     CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAG                         GTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
genomic: CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAGgtaaagttgt ... ctaccaacagGTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
EST: gi|169101673|gb|FE500697.1|FE500697
EST:     CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAG                         GTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
genomic: CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAGgtaaagttgt ... ctaccaacagGTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
EST: gi|169101672|gb|FE500696.1|FE500696
EST:     CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAG                         GTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC
genomic: CATACAAAAAGGCTGTGGCTCGCTTCTGGGCAGACTTTGGTGACAAAAAGgtaaagttgt ... ctaccaacagGTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaagttgtcgcttcttccaggttacttgtttctcactaccaacagGTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGCAAAAAAGCCAGCGAGGACTTGAAGTGGGCTCTGATGAAAATCGATGAAG
                                       ttctcac  putative branch site (score: 2)
                                      tttctcact  CT-rich tract
         taaagtt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagttgtcgcttcttccaggttacttgtttctcactaccaacagGTCTATGACGCCGGTAGCCGACTCATACGAGCTACCACCGAGGAGGAGCGCAAAAAAGCCAGCGAGGACTTGAAGTGGGCTCTGATGAAAATCGATGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG