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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attatttcaggtcgttatggtacatgcagaattgtttatgtaatggctttacatatggtttaatattgtctgtagcattcatgttcttctattttcccagGATTCATCTGTCCTAGCTCAATTGGGATGGCCGGATATGCGGATACCAATCTTATACACCTTATCGTGGCCAGATAGAATCTATTGCTCGGAGGTCACGT

Basic information

species Zea mays
transcript GRMZM2G036290_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G036290_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g01710.1 (Oryza sativa), 3'ss of exon 9
------------------------------------------------------attatttcaggtcgttatggtacatgcagaattgtttatgtaatggc---------------tttacatatggtttaatattgtctgt--agcattcatgttcttctattttcccagGATTCATCTGTCCTAGCTCAATTGGGATGGCCGGATATGCGGATACCAATCTTATACACCTTATCGTGGCCAGATAGAATCTATTGCTCGGAGGTCACGT
                                                         |||| |    ||||   | |||||| | ||  |  ||  |||||               ||||| | ||| |||||||| | | |  || |||||||   |||| |||  |||||||||||||||  | |||||| |||||||||| ||||||||||||||||||||||||||| | || |||||||| |||||||||||||| |||||||| |
gtgagtcctacagcacagctatggaaaatgtttagcggttatgctcaactgcagtggattttaaactgtta--atgcatgcacacttaatcctgatatggcaaccgtattttcatgtttacgtttggcttaatattttttttcaagtattcatgaagttctgtttctccagGATTCATCTGTGTTGGCTCAACTGGGATGGCCAGATATGCGGATACCAATCTTATACACCATGTCTTGGCCAGACAGAATCTATTGCTCAGAGGTCACCT

upper sequence: GRMZM2G036290_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 9
--attatttcaggtcgttatggtacatgcagaattgtttatgtaatggctttacatatggtttaatattgtctgtagcattcatgttcttctattttcccagGATTCATCTGTCCTAGCTCAATTGGGATGGCCGGATATGCGGATACCAATCTTATACACCTTATCGTGGCCAGATAGAATCTATTGCTCGGAGGTCACGT
   || | |    |    |  |   || || |           |||  | ||| | || ||| |  ||  | | ||  | | |  |  ||   |  | ||||||||||||||| || || |||||||| ||||| ||||||||  | |||||| | || || ||||| ||||| || || || ||||| || || ||||| |
aacttgtgtataatatagaaagggtat-caaagaaaggagaaaaatatcattaaacattgttaatcatattatctaatactaa-atcatttcttgattccagGATTCATCTGTTCTTGCACAATTGGGGTGGCCTGATATGCGTTTGCCAATCCTCTATACATTATCATGGCCTGACAGGATTTATTGTTCTGAAGTCACTT

upper sequence: GRMZM2G036290_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT5G62790.1 (Arabidopsis thaliana), 3'ss of exon 9
attatttcaggtcgttatggtacatgcagaattgtttatgtaatggctttacatatggtttaatattgtctgtagcattcatgttcttctattttcccagGATTCATCTGTCCTAGCTCAATTGGGATGGCCGGATATGCGGATACCAATCTTATACACCTTATCGTGGCCAGATAGAATCTATTGCTCGGAGGTCACGT
             ||  || |  |  ||  | |   ||  | ||   ||| |   |  |  || | |  |||||  |    | ||  | |  || | |||||||||||||| || ||||||||||| ||||| ||||||||  |||| ||  | |||||| | || ||||| |||||| |   ||| || || || || |
-------------gtcttgctg-aaacattactaactaaattattatttttccggttttaaaaaaataactgtataacatgtatttgttttgttccacagGATTCATCTGTGCTTGCTCAATTGGGTTGGCCTGATATGCGTTTACCGATTCTCTACACCATGTCATGGCCCGATAGAGTTCCTTGTTCTGAAGTAACTT

upper sequence: GRMZM2G036290_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 9
---------------attatttcaggtcgttat-ggtacatgcagaattgtttatgtaat---ggct-ttacatatggtttaatattg--tctgtagcattcatgttcttctattttcccagGATTCATCTGTCCTAGCTCAATTGGGATGGCCGGATATGCGGATACCAATCTTATACACCTTATCGTGGCCAGATAGAATCTATTGCTCGGAGGTCACGT
               ||| | |  | |  || |   ||  |  |  ||     ||   ||     || || |||||  ||||  |  |  |   ||    |  |   |  || | |  ||||||||| |||||||| || || ||||| ||||| ||||||||  | |||||| | || || |||||||||||||| ||||| || ||||| ||| | || |
gttaattgttatcttattgtcttggcttcttcttaatatgtttaagatgtcaaataccatcagaactgtttcatattttttagaagcggtttcttatgtcttctccacccctttctctccagGATTCGTCTGTCCTGGCACAGTTGGGGTGGCCTGATATGCGTTTGCCAATCCTCTATACTTTATCGTGGCCAGACAGAATTTACTGCTCTGAGATAACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttacatatggtttaatattgtctgtagcattcatgttcttctattttcccagGATTCATCTGTCCTAGCTCAATTGGGATGGCCGGATATGCGGATACCAATCTTATACACCTTATCGTGGCCAGATAGAATCTATTGCTCGGAGGTCACGT
            gtttaat  putative branch site (score: 4)
                                ttcatgttcttctatt  putative PPT
       atatggtttaatatt  TA-rich tract