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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgaagccatggagattagatgcatattttcttgcttaatttgttactgcttttccttcggggaataatatcttttgcatctttgattctggattacagAAGGACGGTCACTTAACACTCCGGGATTTGAAGAACTGCAAACTATCTGGAAACTTTTTCAACATACTCTTTAATCTCAATAAATTCGTGGCATTTGAAA

Basic information

species Physcomitrella patens
transcript PP1S68_31V6.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S68_31V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: GRMZM2G040094_T01 (Zea mays), 3'ss of exon 9
gatgaagccatggagattagatgcat-attttcttgcttaatttgttactgcttttccttcggggaataatatcttttgcatctttgattctggattacagAAGGACGGTCACTTAACACTCCGGGATTTGAAGAACTGCAAACTATCTGGAAACTTTTTCAACATACTCTTTAATCTCAATAAATTCGTGGCATTTGAAA
                ||   |  || | |||  ||| |       |  |     |  |  |  |||| |    || |||||   | ||  ||  || ||||| ||  |  | || |||||    || ||    |  |||||| | |||||  | || |||||||| ||||||||||| || |||||| ||||||||||| 
---------------gttgcctttattaattttgtgcattgccaagttataaacattttatgctgaattag---ttatgcat---taatcttg--ttccagAATGATAGCTATTTGACACTGAAAGACTTCCGAAGGTGCAAATTGTCTGGGCATTTCTTCAACATTCTCTTTAATCTGAACAAATTCATGGCATTTGAAG

upper sequence: PP1S68_31V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: AT5G28900.1 (Arabidopsis thaliana), 3'ss of exon 10
---------------------------------------gatgaagccatggagattagatgcatattttcttgcttaatttgttactgcttttccttcggggaataatatcttttgcatctttgattctggattacagAAGGACGGTCACTTAACACTCCGGGATTTGAAGAACTGCAAACTATCTGGAAACTTTTTCAACATACTCTTTAATCTCAATAAATTCGTGGCATTTGAAA
                                         |  || ||  ||  |    ||  |   | |  | ||  ||| | | |  | |   || |     |  | | |  |   | ||| |||       |||||| ||  | ||  |||| || |  ||  ||||   ||  || || ||||||||| | |||||||| || ||||||||||| |||||  ||||||||||||
gttcaacaatatatctcttgttttcttctttctatatttagtatagtcacagaagtagtttgtgt---tcccagttttctttctgagtcttgtgattttgtt---ttgtgtttgat-tgttttttatttccttccacagAACGAAAGCCATATAACGCTGCATGACCTGAAAGGCTCAAAGCTCTCTGGAAACGTCTTCAACATCCTATTTAATCTCAACAAATTTATGGCATTTGAAA

upper sequence: PP1S68_31V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: AT5G44090.1 (Arabidopsis thaliana), 3'ss of exon 10
-gatgaagccatggagattagatgcatattttcttgcttaatttgttactgcttttccttcggg--gaataatatcttttgcatctttgattctggattacagAAGGACGGTCACTTAACACTCCGGGATTTGAAGAACTGCAAACTATCTGGAAACTTTTTCAACATACTCTTTAATCTCAATAAATTCGTGGCATTTGAAA
  |  |   | |  | |  | |  |||  | | ||| |     ||      || |||||| |     | |   ||| |     |  | || |     || ||||||||      | | ||||||| |||| ||||    | |||||| ||||||||  ||||||| ||||||||||| || || |||||| |||| |||||||
gcaaaatttcttttaaaccata-acatggtcttttgatattcctggcttgtctgttcctttgctcttattcgcatcatcaat-ttgtcgaatgactctttcagAAGGAGAACTGCATCACACTCCAGGATCTGAAAGCATCCAAACTTTCTGGAAATATTTTCAATATACTCTTTAACCTGAACAAATTCATGGCGTTTGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactgcttttccttcggggaataatatcttttgcatctttgattctggattacagAAGGACGGTCACTTAACACTCCGGGATTTGAAGAACTGCAAACTATCTGGAAACTTTTTCAACATACTCTTTAATCTCAATAAATTCGTGGCATTTGAAA
                                    ctttgat  putative branch site (score: 5)
                   aataatatctttt  TA-rich tract