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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctgttgccctgtgatagctgggtgcacaaaagttgaaggacagaagagacttactgatttatacctgcactaatatttgctgttttcaacaattcatagAATGGACAAAGGAGCTACCCGCTACGACCAGAGTTGATTGAAAGCACATATTGGTTGTTCAAGGCTACCAGAGATTACAG

Basic information

species Zea mays
transcript GRMZM2G173868_T04
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os01g56670.4 (Oryza sativa), 3'ss of exon 12
cctgttgccctgtgatagctgggtgcacaaaagttgaaggacagaaga-gacttactgatttatacctgcactaatatttgctgttttcaacaattcatagAATGGACAAAGGAGCTACCCGCTACGACCAGAGTTGATTGAAAGCACATATTGGTTGTTCAAGGCTACCAGAGATTACAG-------------------
   ||||       |     |||  |  ||| ||||||| ||| |  | |    ||| ||||||||   || |||      |  |||   | | |||| ||||||||||||||||||||||||| || || || ||||||||||||||||||||| ||||||||||||| |||||||| ||                   
agagttgattataaagtttggggcaccaaaatgttgaagcacaaagtacgtgccacttatttatactatcattaac-cccaccatttggtatatttcacagAATGGACAAAGGAGCTACCCGCTGCGGCCTGAATTGATTGAAAGCACATATTGGCTGTTCAAGGCTACTAGAGATTATAGGTGTGTCTTTATCTACAAG

upper sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os01g56670.3 (Oryza sativa), 3'ss of exon 12
cctgttgccctgtgatagctgggtgcacaaaagttgaaggacagaaga-gacttactgatttatacctgcactaatatttgctgttttcaacaattcatagAATGGACAAAGGAGCTACCCGCTACGACCAGAGTTGATTGAAAGCACATATTGGTTGTTCAAGGCTACCAGAGATTACAG
   ||||       |     |||  |  ||| ||||||| ||| |  | |    ||| ||||||||   || |||      |  |||   | | |||| ||||||||||||||||||||||||| || || || ||||||||||||||||||||| ||||||||||||| |||||||| ||
agagttgattataaagtttggggcaccaaaatgttgaagcacaaagtacgtgccacttatttatactatcattaac-cccaccatttggtatatttcacagAATGGACAAAGGAGCTACCCGCTGCGGCCTGAATTGATTGAAAGCACATATTGGCTGTTCAAGGCTACTAGAGATTATAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagacttactgatttatacctgcactaatatttgctgttttcaacaattcatagAATGGACAAAGGAGCTACCCGCTACGACCAGAGTTGATTGAAAGCACATATTGGTTGTTCAAGGCTACCAGAGATTACAG
                       cactaat  putative branch site (score: 2)
                        actaatattt  TA-rich tract