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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctagtacccttcccatttgaaatctgttgacccaaagcattccagaggcacttaattccattgaagggagcagtaatcttgttcatgtgccattttcagAGAGATTCAAATGTTCATGTACACTGGAAAGGAGCTGCTGAAATTGTTCTTGCCTTGTGCACAAGTTGGCTCAATGTGGATGGCTCAACACATGAAATGA

Basic information

species Zea mays
transcript GRMZM5G892495_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G892495_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g08010.1 (Oryza sativa), 3'ss of exon 3
tctagtacccttcccatttgaaatctgttgacccaaagcattccagaggcacttaattccat-tgaagggagcagtaatcttgtt-catgtgccattttcagAGAGATTCAAATGTTCATGTACACTGGAAAGGAGCTGCTGAAATTGTTCTTGCCTTGTGCACAAGTTGGCTCAATGTGGATGGCTCAACACATGAAATGA
  | |  |   |     | ||   |   |      | |  || ||   ||  |  |||     || |    || | || ||| |   ||        |||||   |||||| || ||||||| ||||||||||| ||||||||||||||||||||||| || |||| ||||||  ||||  |||||   |  ||||||||||
--tggatctagtttagctagagtacaaatattttcatgatttgcaagtgccttctatttggcatgtaacacgctgcaaccttataatattgtttgcattcagGATGATTCAGATATTCATGTGCACTGGAAAGGGGCTGCTGAAATTGTTCTTGCCTTATGTACAAATTGGCTTGATGTAAATGGCATTAGTCATGAAATGA

upper sequence: GRMZM5G892495_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT5G57110.2 (Arabidopsis thaliana), 3'ss of exon 21
-----------------------------------------------------------------------------------tctagtacccttcccatttgaaatc-tgttgacccaaagcattccagaggcacttaattccattgaagggagc--agtaatcttgttcatgtgccattttcagAGAGATTCAAATGTTCATGTACACTGGAAAGGAGCTGCTGAAATTGTTCTTGCCTTGTGCACAAGTTGGCTCAATGTGGATGGCTCAACACATGAAATGA
                                                                                      |    |      | | |||||  | |  |  || |   |   ||      | | || | ||                | |    |   |     ||||||   |||    | |||||||| ||||||||||||||| |||||||||| || || |  |||  ||| |   || ||| ||||||            |||||
gtaaataaaccagtttcttgagccctgtatttgcttacgaatttttatactctattttttaaggttgcatgaaagatataagcgtgaaggtctactatagtcgaaataatatctatgcagactctataagcacagttcagtttcttttctttttttttgacgttttcccccccatatttctttcagGCTGATGGTGAAGTTCATGTTCACTGGAAAGGAGCTTCTGAAATTGTCCTGGCATCATGCCGAAGCTACATCGATGAGGATGGTAATGTGGCACCAATGA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaggcacttaattccattgaagggagcagtaatcttgttcatgtgccattttcagAGAGATTCAAATGTTCATGTACACTGGAAAGGAGCTGCTGAAATTGTTCTTGCCTTGTGCACAAGTTGGCTCAATGTGGATGGCTCAACACATGAAATGA
     acttaat  putative branch site (score: 4)
                                             ccattttc  putative PPT
     acttaatt  TA-rich tract