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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttaagccgtagcttctttacttcgtggccttatcacacaatacagGAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTTTGGAACGTCTGCAATCTGTAAATGCCGTCGTTTTTGATAAG

Basic information

species Selaginella moellendorffii
transcript EFJ35201
intron # 10
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|169027475|gb|FE433734.1|FE433734
EST:     TGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAG                         GAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTCTGGAACGTCTGG
genomic: TGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAGgtacttaagc ... cacaatacagGAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTTTGGAACGTCTG-
EST: gi|169097131|gb|FE497105.1|FE497105
EST:     TGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAG                         GAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTCTGGAACGTCTGG
genomic: TGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAGgtacttaagc ... cacaatacagGAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTTTGGAACGTCTG-
EST: gi|169029999|gb|FE439178.1|FE439178
EST:     TGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAG                         GAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTCTGGAACGTCTGG
genomic: TGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAGgtacttaagc ... cacaatacagGAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTTTGGAACGTCTG-
EST: gi|169105467|gb|FE506439.1|FE506439
EST:     TGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAG                         GAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTCTGGAACGTCTGG
genomic: TGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAGgtacttaagc ... cacaatacagGAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTTTGGAACGTCTG-
EST: gi|169024040|gb|FE435148.1|FE435148
EST:     TGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAG                         GAGCAAAGCAAGGACTCTTGCTGCGT
genomic: TGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAGgtacttaagc ... cacaatacagGAGCAAAGCAAGGACTCTTGCTGCGT

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), 35 (downstream exon)
Score: 8

GTTGTAGCATGTCCTTGTGCTCTTGGTTTGGCTACTCCAACAGCTGTGCTTGTGGGAACATCTCTAGgtacttaagc ... cacaatacagGAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTTTGGAACGTCTGCAATCTGTAAATGCCGTCGTTTTTGATAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacttaagccgtagcttctttacttcgtggccttatcacacaatacagGAGCAAAGCAAGGACTCTTGCTGCGTGGTGGAGACGTTTTGGAACGTCTGCAATCTGTAAATGCCGTCGTTTTTGATAAG
                  tacttaa  TA-rich tract