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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgattgaagcattgcttttcttgtaaggtcatgttttctttttctcacaattgaggaatacttttataaaccttacatgctttctaatctgtctgcagGGTCTTTGTCCTTGCCGTGACAACGTTTCTTGATTGTTGGATGTATGGTTCCCGGATCATAGTGCCACTTAATTTTTTGAAATTTAACCTCTTCTCTTCA

Basic information

species Oryza sativa
transcript LOC_Os01g39810.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g39810.4 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G000937_T01 (Zea mays), 3'ss of exon 5
----------------gatgattgaagcattgcttttcttgtaaggtcatgttttctttttctcacaattgaggaatacttttataaaccttacatgctttctaatctg----tctgcagGGTCTTTGTCCTTGCCGTGACAACGTTTCTTGATTGTTGGATGTATGGTTCCCGGATCATAGTGCCACTTAATTTTTTGAAATTTAACCTCTTCTCTTCA
                  | ||  || | ||   | | | ||  | | | | ||| ||| | |||| |    ||  ||    |||      |  ||  ||   || |||    | ||||||| | |||||||||| || |||||  | |||||||| ||||||||||||||| || |||||||||| ||||||||||||||||| ||| | || ||||| 
gtaagttattgttaaaattcatataaaccttctatctttcgtt-gtttaagatttttttatttcactacactggcttatcactattgtttcttgat--ttcacaaactggacatatgcagGGCCATTGTCCTTGCAGTAACAACACTCCTTGATTGGTGGATGTATGGTTCCTGGGTCATAGTGCCGCTTAATTTTTTGAAATTCAACTTATTGTCTTCC

upper sequence: LOC_Os01g39810.4 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G164175_T02 (Zea mays), 3'ss of exon 6
-gatgattgaagcattgcttttcttgtaaggtcatgttttctttt---tctcacaattgaggaatacttttataaaccttacatgctttctaatctgtctgcagGGTCTTTGTCCTTGCCGTGACAACGTTTCTTGATTGTTGGATGTATGGTTCCCGGATCATAGTGCCACTTAATTTTTTGAAATTTAACCTCTTCTCTTCA
   |   | |    ||| || | |||  | | ||  |||| || |   | || | ||  | || || || |||| |  |||  || ||   ||||| |||||||||   |||||||||| || |||||  | |||||||| ||||||||||||||| || |||||||||| ||||||||||||||||| ||| | || ||||| 
atgttgcttatctgttgattctgttgggatgccaattttttttatatatttcccgatgaatgacta-ttctatataaattatttgttt---aatctttctgcagGGCAATTGTCCTTGCTGTAACAACACTCCTTGATTGGTGGATGTATGGTTCCTGGGTCATAGTGCCGCTTAATTTTTTGAAATTCAACTTATTGTCTTCC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcacaattgaggaatacttttataaaccttacatgctttctaatctgtctgcagGGTCTTTGTCCTTGCCGTGACAACGTTTCTTGATTGTTGGATGTATGGTTCCCGGATCATAGTGCCACTTAATTTTTTGAAATTTAACCTCTTCTCTTCA
                                      ttctaat  putative branch site (score: 2)
                                            tctgtct  CT-rich tract
             aatacttttataaa  TA-rich tract