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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatccttttgtttggtagtcttcgtttggtagtttttctttgctacaattgacagATATCCAGCTCGTGAAGAATAATGCACTCGTTGGTGCGAAAATTGCAACGGCTCTGACAACAAGGCTGAGTCGCTTCACTAAATCGTCTTGCCACTAA

Basic information

species Selaginella moellendorffii
transcript EFJ25989
intron # 9
splice site 3'
intron type U12 (go to U12 genes for details)

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: 5

GAGCAGAGGTATTGCCGGTAATTCTGTGACGCCATTCTTGCTCAAGCGCGTCAACGAGCTCACTGGAGGCGATTCATTGGCTGCAAgtatcctttt ... caattgacagATATCCAGCTCGTGAAGAATAATGCACTCGTTGGTGCGAAAATTGCAACGGCTCTGACAACAAGGCTGAGTCGCTTCACTAAATCGTCTTGCCACTAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatccttttgtttggtagtcttcgtttggtagtttttctttgctacaattgacagATATCCAGCTCGTGAAGAATAATGCACTCGTTGGTGCGAAAATTGCAACGGCTCTGACAACAAGGCTGAGTCGCTTCACTAAATCGTCTTGCCACTAA
 tttctttgc  putative branch site 
                                tttttctttgctac  putative PPT
                                tttttcttt  TA-rich tract