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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACACTCGTCTTCTATAAGGGCAGGGCGCCTAATGGCCAGAAGACCGACTGGATCATGCACGAGTACCGCCTCGAGACCGACGAGAACGCGCCGCCACAGgtatatacatataccgatttcactagctaattggtttcttaattttctctgcatgctagctagctctacataaactagcaaactggttccatgcttgata...

Basic information

species Oryza sativa
transcript LOC_Os03g03540.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g03540.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G025642_T02 (Zea mays), 5'ss of exon 3
GACACTCGTCTTCTATAAGGGCAGGGCGCCTAATGGCCAGAAGACCGACTGGATCATGCACGAGTACCGCCTCGAGACCGACGAGAACGCGCCGCCACAGgtatatacatataccgatttcactagctaa--ttggtttcttaattttctctgcatgctagctagctctacataaactagcaaactggttccatgcttgata
||| ||||||||||| ||||| ||||| || || ||||| ||||||||||||||||||||||||||||||||||||||||||||||| |||||||| |||| |    |  ||  |  |  || |     |  ||   ||    || |||  || ||   |   | | |||   | |    |      |||  || ||     
GACGCTCGTCTTCTACAAGGGGAGGGCCCCCAACGGCCACAAGACCGACTGGATCATGCACGAGTACCGCCTCGAGACCGACGAGAATGCGCCGCCGCAGgcaagctc-catctccttcacagtgatctaccttaaattacccatattcattgtatcagatgcaccactaagcatatatactcttctgtttaattctattc-

upper sequence: LOC_Os03g03540.1 (Oryza sativa), 5'ss of exon 2
lower sequence: AT2G18060.1 (Arabidopsis thaliana), 5'ss of exon 2
GACACTCGTCTTCTATAAGGGCAGGGCGCCTAATGGCCAGAAGACCGACTGGATCATGCACGAGTACCGCCTCGAGACCGACGAGAACGCGCCGCCACAGgtatatacatataccgatttcactagctaattggtttcttaattttctctgcatgctagctagctctacataaactagcaaactggttccatgcttgata------
 ||||| || ||||| || ||  | || ||||||||| ||||  |||| ||||||||||| |||||||| |||||| | || ||||| || ||||| ||||||  |   | |  | | ||   | |  |       | ||  ||||   |    |||   |  ||||   |   ||         |   ||||||   |       
AACACTTGTGTTCTACAAAGGACGTGCACCTAATGGCAAGAAATCCGATTGGATCATGCATGAGTACCGGCTCGAGTCAGATGAGAATGCACCGCCCCAGgtacttgtgttt--ctactttggtggggacaaaacatttttgttttaattagg-gcttcttgtctct---tgggctctttcgtgaggcacatgctaacttttaggt

upper sequence: LOC_Os03g03540.1 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S77_42V6.1 (Physcomitrella patens), 5'ss of exon 2
GACACTCGTCTTCTATAAGGGCAGGGCGCCTAATGGCCAGAAGACCGACTGGATCATGCACGAGTACCGCCTCGAGACCGACGAGAACGCGCCGCCACAGgtat-atacatataccgatttcactagctaattggtttcttaattttc-tctgcatgctagctagctctacataaactagcaaactggttccatgcttgata------
       || ||||| |||||| |||||||| ||||||||||||||||||||||||||||||||| ||| || ||   || | |  | ||    || | | |   ||  |  |  |  || |||      |      ||  | | ||| | | | |       ||   | ||| | | || || || |   |     || |       
------GGTGTTCTACAAGGGCCGGGCGCCTCATGGCCAGAAGACCGACTGGATCATGCACGAGTTCCGTCTAGACGACGGCAACCAGGCATT-CCGCGGTTTCGATgtacgtcgccgttccacatttccaaccccctcacagtgttcgtgtccctttcgatcagtgttgcatta-ccagaaagcttgcctcggagatgctcccagat

upper sequence: LOC_Os03g03540.1 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S1_447V6.1 (Physcomitrella patens), 5'ss of exon 2
GACACTCGTCTTCTATAAGGGCAGGGCGCCTAATGGCCAGAAGACCGACTGGATCATGCACGAGTACCGCCTCGAGACCGACGAGAACGCGCCGCCACAGgtatatacatataccgatttcactagctaattggtttcttaattttctctgcatgctagctagctctacataaactagcaaactggttccatgc-ttgata-------------------------------------------------------
     | |||||||| |||||  | || ||  |||||||||| || |||||||||||||||||||  || ||  ||||  | |     ||| | ||       |    |   |||    |||  |   |  |  ||   ||  | |||    || ||||    |  |  | |   | |   |||   ||||  | || ||                                                        
---GTTAGTCTTCTACAAGGGGCGAGCACCACATGGCCAGAAAACGGACTGGATCATGCACGAGTTTCGTCT--AGACGAAGGCCCCGGCGTCACCTTGAAC-TTCgtaagcacctccctcaaaattcatctacttctctacgtatctacagat-ctagtgttcatttta-aggtttgagtactttctccaaacattcatttcgttcagaataatgtgggggtgctgattgcgactgtgttcgccaagttgtgcag

upper sequence: LOC_Os03g03540.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ22020 (Selaginella moellendorffii), 5'ss of exon 2
GACACTCGTCTTCTATAAGGGCAGGGCGCCTAATGGCCAGAAGACCGACTGGATCATGCACGAGTACCGCCTCGAGACCGACGAGAACGCGCCGCCACAGgtatatacatataccgatttcactagctaattggtttcttaattttctctgcatgctagctagctctacataaactagcaaactggttccatgcttgata
          ||||| |  || || || || || || |||||||||||||||||||||||||||||| | ||||||   |||   | |  || |   |||  | |   || ||      || |   ||     | || ||  || | |   | |  ||  |   |     |      | ||    |              
---------TTTCTACAGAGGGAGAGCTCCAAACGGGCAGAAGACCGACTGGATCATGCACGAGTACAGGCTCGAGGAGGACATCAGCA-GCAGTGGCAGCAACAACAATgtaagatcctctcgtacttggcagcttttttcttctataaccctcttatttttttggttttggctctgaaatgcag--------------