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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactcattcttctctactggagactttagttttcatctaaagagcaaccacgcagGAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCTGCGTTTCACGGCTGAGAAAATGCGGAGCCATCTTTCCTGGAAAAGCCAA

Basic information

species Selaginella moellendorffii
transcript EFJ32727
intron # 6
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|169021984|gb|FE429071.1|FE429071
EST:     TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATG                         GAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
genomic: TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATGgtaactcatt ... aaccacgcagGAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
EST: gi|169058240|gb|FE466007.1|FE466007
EST:     TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATG                         GAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
genomic: TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATGgtaactcatt ... aaccacgcagGAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
EST: gi|169065266|gb|FE473167.1|FE473167
EST:     TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATG                         GAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
genomic: TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATGgtaactcatt ... aaccacgcagGAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
EST: gi|169100954|gb|FE500594.1|FE500594
EST:     TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATG                         GAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
genomic: TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATGgtaactcatt ... aaccacgcagGAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
EST: gi|169020347|gb|FE428318.1|FE428318
EST:     TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATG                         GAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
genomic: TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATGgtaactcatt ... aaccacgcagGAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
EST: gi|169026087|gb|FE432944.1|FE432944
EST:     TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATG                         GAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT
genomic: TTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATGgtaactcatt ... aaccacgcagGAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 31 (upstream exon), 27 (downstream exon)
Score: 9

GGAATCCCATCTCTATACTGGATGGAATTTTTATAGCGATCAAAGACGACATCGACTGCCTTCCTTACGAAACCAATGgtaactcatt ... aaccacgcagGAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCTGCGTTTCACGGCTGAGAAAATGCGGAGCCATCTTTCCTGGAAAAGCCAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactcattcttctctactggagactttagttttcatctaaagagcaaccacgcagGAGCGTCGGTGTGGGTGAAAAAGATCCGAAAGACCAAGGATGATTCAGTCTGCGTTTCACGGCTGAGAAAATGCGGAGCCATCTTTCCTGGAAAAGCCAA
                                  atctaaa  putative branch site (score: 9)
                        tttagtttt  TA-rich tract