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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaataaagtaaaaaaatcataatagattgctgttgtacaatttcacaaagttgtttcgtttgggcttttaacctatggactccatgctcgctttttcagATCATTGCCTTAATATGCAACTTCTCAGGTGCTTGTAGAAAAACTGCAAGGCTTAACCATGGGGATGTTGAAACTCTTTTTCATGAGTTTGGGCATGCCC

Basic information

species Zea mays
transcript GRMZM2G450659_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G450659_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g47210.1 (Oryza sativa), 3'ss of exon 12
taaataaagtaaaaaaatcataatagattgctgttgtacaatt-tcacaaagttgtttcgtttgggcttt---taacctatggactccatgctcgc-tttttcagATCATTGCCTTAATATGCAACTTCTCAGGTGCTTGTAGAAAAACTGCAAGGCTTAACCATGGGGATGTTGAAACTCTTTTTCATGAGTTTGGGCATGCCC
     ||  || |  ||  |   | ||  ||  ||  |  ||  | |||| | |  |   | |  | ||      ||| ||  ||| ||| ||     |||||||||| ||||  || | ||||| || ||| || |  | | || ||  ||||||||||||||| |||||||||||||||| |||||||||||||| |||||||
---tcaacatagatgaagaacttttgacagcatttaaatgatccttacaaggataat--atctaagattcacgccaccaattcacttcattctgatgcttttcagATCGTTGCTCTAGTTTGCAATTTTTCAAGTTCGAGCAAAATAATGGCAAGGCTTAACCATTGGGATGTTGAAACTCTGTTTCATGAGTTTGGCCATGCCC

upper sequence: GRMZM2G450659_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv16s0022g01280.t01 (Vitis vinifera), 3'ss of exon 1
---taaataaagtaaaaaaatcataatagattgctgttgtacaatttcacaaagttgtttcgtttgggcttttaacctatggactccatgctcgctttttcagATCATTGCCTTAATATGCAACTTCTCAGGTGCTTGTAGAAAAACT---GCAAGGCTTAACCATGGGGATGTTGAAACTCTTTTTCATGAGTTTGGGCATGCCC
     | ||| ||||       | | |||| || | |   ||   ||      ||| |     | |  |||||   ||    |     || | | |  | ||| |  | ||| |  | || || ||  | ||| |  | ||   | ||   |||| ||| |||||| |||| || ||||||||||||||||||||||| ||||   
cttgtattaatgtaactgtgcta-attagactgttctcaaacttctttgtgg-gttatgcatctagttcttttggacttaccatcttttggt-ggtactgcagGTTGTAGCCCTTGTTTGTAATTTTGCCGGTTCACGCAGTTCATCTTCTGCAAAGCTGAACCATTGGGAAGTAGAAACTCTTTTTCATGAGTTTGGACATG---


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaagttgtttcgtttgggcttttaacctatggactccatgctcgctttttcagATCATTGCCTTAATATGCAACTTCTCAGGTGCTTGTAGAAAAACTGCAAGGCTTAACCATGGGGATGTTGAAACTCTTTTTCATGAGTTTGGGCATGCCC
                     ttttaac  putative branch site (score: 2)
                                          ctcgctttttc  putative PPT
                     ttttaa  TA-rich tract