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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttgttgttatcttctacccattcagatgtatggggcaaagtccctaaatgtcacttcatctctgtaaatagGGAATCTGAACCCAATTCCTGGGAGGACACCATGAAAGATGAGCTGGACCGTGATAAATATCCCCGCATGCCTTGGCATGATGTTCAGTGTGCTCTCTAT

Basic information

species Zea mays
transcript GRMZM2G066485_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os05g29050.2 (Oryza sativa), 3'ss of exon 11
---------gtattttgttgttatcttctacccattcagatgtatggggcaaagtccctaaatgtcacttcatct-ctgtaaata-gGGAATCTGAACCCAATTCCTGGGAGGACACCATGAAAGATGAGCTGGACCGTGATAAATATCCCCGCATGCCTTGGCATGATGTTCAGTGTGCTCTCTAT
         |||||| |||  |   |  ||   ||  ||   |||    |||| |      |  | | ||   || ||||| ||| |||||||||| || ||||||||||||||||| ||||||||||||||||||||    |||||||| ||||||||||||||||||||||||||||||||||| 
gtaactatggtatttcgtttatga-tggtatttatgtaggattattcc-caaattattcttacctgagttttcctgctgtacataagGGAATCTGAGCCAAATTCCTGGGAGGACACAATGAAAGATGAGCTGGACCGAACGAAATATCCTCGCATGCCTTGGCATGATGTTCAGTGTGCTCTCTAC

upper sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 10
----------------------gtattttgttgttatcttctacccattcagatgtatgggg--caaagtccctaaatgtcacttcatctctgtaaatagGGAATCTGAACCCAATTCCTGGGAGGACACCATGAAAGATGAGCTGGACCGTGATAAATATCCCCGCATGCCTTGGCATGATGTTCAGTGTGCTCTCTAT
                      ||  ||  || |||  |  |        || | | |   |  ||| |    |||  |   | |  ||  | |  | || ||||||||||| ||||| ||||| || || |||||||||||  | || ||||| |||||||| || |||||||||||||||||||| ||||| || |  
cactttgaatgtgttaagatatgtcattcattattaattgatcatagactagctctttcctgttcaacgatagtaatagattcattttcaattttgacagAGAATCTGAACCAAATTCATGGGAAGATACAATGAAAGATGAATTAGAACGTGAAAAATATCCTCGTATGCCTTGGCATGATGTTCATTGTGCCCTTTGG

upper sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA15G16270.1 (Glycine max), 3'ss of exon 10
-------------gtattttgttgttatcttctacccattcag-atgtatggggcaaagtccctaaatgtcact-------tcatctctg---taaatagGGAATCTGAACCCAATTCCTGGGAGGACACCATGAAAGATGAGCTGGACCGTGATAAATATCCCCGCATGCCTTGGCATGATGTTCAGTGTGCTCTCTAT
             || ||  | ||| ||     |   ||| |  ||  |  |  |       || || || | |       |||| |      |  | || ||||||||||| ||||| ||||| || || |||||||||||  | || ||||| |||||||| || |||||||||||||||||||| ||||| || |  
ttgcactttgaatgtgttaagatgtcattcatcattaattaatcatagacagctctttcctgctgaacgttagtaatatattcattttcaattttgacagAGAATCTGAACCTAATTCATGGGAAGATACAATGAAAGATGAATTAGAACGTGAAAAATATCCTCGTATGCCTTGGCATGATGTTCATTGTGCCCTTTGG

upper sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA20G38200.1 (Glycine max), 3'ss of exon 11
------------------------gtattttgttgttatcttctacccattcagatgtatggggcaaagtccctaaatgtcacttcatctctgtaaatagGGAATCTGAACCCAATTCCTGGGAGGACACCATGAAAGATGAGCTGGACCGTGATAAATATCCCCGCATGCCTTGGCATGATGTTCAGTGTGCTCTCTAT
                         |    | ||| |      |   | ||   | ||     | ||  |     ||| |    |  | |  ||  |||| |||||||| || ||||| ||||| |||||||||||||||||  |||| ||  | || |||||||| ||||| ||||| ||||| || |||||||| |  
cattacaattagccgtgttggagccttcactattgctgatgagtctgcttttctaagttcttagtaatattatataatttgtaattttgttggttgatagAGAATCTGAGCCAAATTCATGGGAAGACACCATGAAAGATGAATTGGATCGCAAGAAGTATCCCCGTATGCCATGGCACGATGTCCATTGTGCTCTTTGG

upper sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 11
--------------------------------gtattttgttgttatcttctacccattcagatgtatggggcaaagtccctaaatgtcacttcatctctgtaaatagGGAATCTGAACCCAATTCCTGGGAGGACACCATGAAAGATGAGCTGGACCGTGATAAATATCCCCGCATGCCTTGGCATGATGTTCAGTGTGCTCTCTAT
                                 ||  |  |||  |  || |   || || |     |    || | |   ||| |   | |  || |        |||||||||||||| ||||| ||||| || || |||||||||||  |||| ||||  |||||||| || ||||| |||||||| || || ||||| || |  
gtgtgagaacattgacaatagtttcttcttttctaagtaattgcaagtttgttttcactctggctcttt---cacattggataacttgtaatgaattttcaatttcagGGAATCTGAACCAAATTCTTGGGAAGATACAATGAAAGATGAATTGGATCGTGGAAAATATCCTCGTATGCCATGGCATGACGTCCATTGTGCCCTATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccattcagatgtatggggcaaagtccctaaatgtcacttcatctctgtaaatagGGAATCTGAACCCAATTCCTGGGAGGACACCATGAAAGATGAGCTGGACCGTGATAAATATCCCCGCATGCCTTGGCATGATGTTCAGTGTGCTCTCTAT
                         ccctaaa  putative branch site (score: 3)
                                     cttcatctct  putative PPT
                                              tgtaaata  TA-rich tract