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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggttgtatgccttggctaatatcagatgttggtaacagggttgttttagGCCACAAACAAGCGTTATGGCTCTACAAACCAACGACAAAATGCTCTAATTCTCCGAACTATAATGACTCACTTGTTATATAACCTACAGCAAATCCATA

Basic information

species Selaginella moellendorffii
transcript EFJ14952
intron # 5
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|169036492|gb|FE446481.1|FE446481
EST:     AACAAAAGACATTTCCAGAGAATCTCTCAAAGCAACTTCTCGGAGACAGT                         GCCACAAACAAGCGTTATGGCTCTACAAACCAACGACAAAATGCTCTAATT
genomic: AACAAAAGACATTTCCAGAGAATCTCTCAAAGCAACTTCTCGGAGACAGTgtaaggttgt ... gttgttttagGCCACAAACAAGCGTTATGGCTCTACAAACCAACGACAAAATGCTCTAATT
EST: gi|169068801|gb|FE478494.1|FE478494
EST:     AACAAAAGACATTTCCAGAGAATCTCTCAAAGCAACTTCTCGGAGACAGT                         GCCACAAACAAGCGTTATGGCTCTACAAACCAACGACAAAATGCTCTAATT
genomic: AACAAAAGACATTTCCAGAGAATCTCTCAAAGCAACTTCTCGGAGACAGTgtaaggttgt ... gttgttttagGCCACAAACAAGCGTTATGGCTCTACAAACCAACGACAAAATGCTCTAATT

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: 34 (upstream exon), 34 (downstream exon)
Score: 18

GTGGCTAGTGTGGAAGTTTCAAGGCTACCATACGTTGAATCACTACATGAAACAAAAGACATTTCCAGAGAATCTCTCAAAGCAACTTCTCGGAGACAGTgtaaggttgt ... gttgttttagGCCACAAACAAGCGTTATGGCTCTACAAACCAACGACAAAATGCTCTAATTCTCCGAACTATAATGACTCACTTGTTATATAACCTACAGCAAATCCATA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaggttgtatgccttggctaatatcagatgttggtaacagggttgttttagGCCACAAACAAGCGTTATGGCTCTACAAACCAACGACAAAATGCTCTAATTCTCCGAACTATAATGACTCACTTGTTATATAACCTACAGCAAATCCATA
                                   tggtaac  putative branch site (score: 18)
                                              ttgtttt  putative PPT
                      taatatca  TA-rich tract