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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtttcaactttccaggtccaggtctcattgatcacctccatgttcctttcatgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGCAAAGACTTACACAGGCTTGTCGTTGAGAGTCCTTCTGCAATTGACGGTG

Basic information

species Selaginella moellendorffii
transcript EFJ22722
intron # 2
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|169107662|gb|FE514323.1|FE514323
EST:     TGGAGATAGCGGAGGTGCTTCCAGCCTGTCCTAACCTGCAGTATCTTCGG                         GTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
genomic: TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
EST: gi|169027771|gb|FE434882.1|FE434882
EST:     TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGG                         GTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
genomic: TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
EST: gi|169061787|gb|FE470705.1|FE470705
EST:     TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGG                         GTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
genomic: TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
EST: gi|169022976|gb|FE428677.1|FE428677
EST:     TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGG                         GTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
genomic: TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
EST: gi|169075335|gb|FE483593.1|FE483593
EST:     TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGG                         GTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
genomic: TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
EST: gi|169110581|gb|FE509805.1|FE509805
EST:     TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGG                         GTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
genomic: TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
EST: gi|169018798|gb|FE426983.1|FE426983
EST:     TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGG                         GTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
genomic: TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
EST: gi|169107107|gb|FE507261.1|FE507261
EST:     TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGG                         GTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
genomic: TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
EST: gi|169052954|gb|FE460669.1|FE460669
EST:     GGAGATAGCGGAAGTGCTTCGAGCCTGTCCCTA-CCTGCAGTATCTTCGG                         GGTGT-AGACTTGGCTGG
genomic: GGAGATAGCGGAGGTGCTTCGAGCCTGTCC-TAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagG-TGTTAGACTTGGCTGG
EST: gi|169025280|gb|FE434165.1|FE434165
EST:     TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGG                         GTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC
genomic: TGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGC

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), 35 (downstream exon)
Score: 17

CAGTTCTCGTTTGACGAGGCTCGACCTATCTTACTCCAACCTTACCGAGGTGGAGATAGCGGAGGTGCTTCGAGCCTGTCCTAACCTGCAGTATCTTCGGgtaagtgttt ... atgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGCAAAGACTTACACAGGCTTGTCGTTGAGAGTCCTTCTGCAATTGACGGTG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactttccaggtccaggtctcattgatcacctccatgttcctttcatgtttccagGTGTTAGACTTGGCTGGAGACCACGGGTTGCAAGCGCTGGGGAACTCTTGCAAAGACTTACACAGGCTTGTCGTTGAGAGTCCTTCTGCAATTGACGGTG
                    cattgat  putative branch site (score: 17)
                                     ttcctttcatgtttcc  putative PPT