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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcttttctcctctatgtcctggcaaggcttcatcttgtcctttgttcttttttttttctttccatagAGTTACGAGACAACGGAACACAAAATTAAAAGGGAGTTTGAGGCATATGGTCCAATAAAAAGGGTAGGT

Basic information

species Selaginella moellendorffii
transcript EFJ17734
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ17734 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GLYMA01G38120.1 (Glycine max), 3'ss of exon 5
gtaagtt-tcttttctcctcta-tgtcctggcaaggcttcatc----------ttgtcctttgttcttttttttttctttccatagAGTTACGAGACAACGGAACACAAAATTAAAAGGGAGTTTGAGGCATATGGTCCAATAAAAAGGGTAGGT
||||||| | |||||   | || | |    |  |  ||| |            | | | | | || || ||    ||||   | ||||||||||||| || ||   || ||| ||||||||||||||| ||||||||||||| ||| ||      
gtaagttgtattttccaatgtagtattagtgtgacactttagtagcatatagttagccatatcttattgttgccatcttctaacagAGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGTCATATGGTCCAATCAAACGG------

upper sequence: EFJ17734 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GLYMA11G07200.2 (Glycine max), 3'ss of exon 5
gtaagtttcttttctcctctatgtcctggcaaggctt---------catcttgtcctttgttcttttttttttctttccatagAGTTACGAGACAACGGAACACAAAATTAAAAGGGAGTTTGAGGCATATGGTCCAATAAAAAGGGTAGGT
|||||||   |||  |      ||  | |  |  |||          |  | ||| | | || || ||  | ||||   | ||||||||||||| || ||   || ||| ||||||||||||||| ||||||||||||| ||| ||      
gtaagttgtattttccaatgtagtattagtgacacttattagcgtatagttagtcatatctttttgttgctgtcttctaacagAGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGTCATATGGTCCAATCAAACGG------
















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: 133

ATGACCCTCAAACCGATTCCAACATTGAGGGCGATCCATACAAAACACTATTTGTCGCGAGGATTgtaagtttct ... ctttccatagAGTTACGAGACAACGGAACACAAAATTAAAAGGGAGTTTGAGGCATATGGTCCAATAAAAAGGGTAGGT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgtcctggcaaggcttcatcttgtcctttgttcttttttttttctttccatagAGTTACGAGACAACGGAACACAAAATTAAAAGGGAGTTTGAGGCATATGGTCCAATAAAAAGGGTAGGT
               cttcatcttgtccttt  CT-rich tract
                            tttgttcttttttttt  TA-rich tract