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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagagaaagaagcgcttcttttttgttgggcgatctaagtgtttcggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATACGGGCCCTTGAACTGGAATGGCAACGAATGGGAGGTGGCAGTGCAAGTAG

Basic information

species Selaginella moellendorffii
transcript EFJ26147
intron # 3
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|169063314|gb|FE472148.1|FE472148
EST:     ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAG                         GTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
genomic: ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
EST: gi|169063313|gb|FE472147.1|FE472147
EST:     ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAG                         GTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
genomic: ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
EST: gi|169073339|gb|FE481103.1|FE481103
EST:     ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAG                         GTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
genomic: ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
EST: gi|169040147|gb|FE447068.1|FE447068
EST:     ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGATAGAG                         GTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
genomic: ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
EST: gi|169066673|gb|FE473284.1|FE473284
EST:     ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAG                         GTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
genomic: ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
EST: gi|169066672|gb|FE473283.1|FE473283
EST:     ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAG                         GTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
genomic: ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
EST: gi|169077435|gb|FE485919.1|FE485919
EST:     ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAG                         GTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
genomic: ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
EST: gi|169096966|gb|FE498409.1|FE498409
EST:     ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAG                         GTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
genomic: ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
EST: gi|169040148|gb|FE447069.1|FE447069
EST:     ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAG                         GTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
genomic: ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
EST: gi|169111976|gb|FE512227.1|FE512227
EST:     ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAG                         GTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC
genomic: ATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATAC

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: 35 (upstream exon), 31 (downstream exon)
Score: 28

GCGTTTGATGGACGAGCCATTGGTCTCGGCCATCGATCAAGTAAACGTGCATACTTACATCAACTTCGTGACGAGAGAAGAGACTGCAAGGAGGAAAGAGgtagagaaag ... ggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATACGGGCCCTTGAACTGGAATGGCAACGAATGGGAGGTGGCAGTGCAAGTAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagagaaagaagcgcttcttttttgttgggcgatctaagtgtttcggcttttcagGTAAGGCAGGCTGTTAGCTCTATTGGAAAGAGACTCTGGATGTCGGAATACGGGCCCTTGAACTGGAATGGCAACGAATGGGAGGTGGCAGTGCAAGTAG
                                               cttttc  CT-rich tract
               ttctttttt  TA-rich tract