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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgagcctcaattcatttttacactttgttgctgtttttttcttgcttggaatatattgggttaatttgtcgtatctccagACTCTATACCAAATGTTTATCGTCAATGCTGGTCCGGGCTTCCGGTTACTATGGAACACTGTGAAGTCCTTCCTTGATCCCAAAACGACCGCCAAGATAC

Basic information

species Zea mays
transcript GRMZM2G073571_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073571_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g04020.1 (Oryza sativa), 3'ss of exon 6
-----gtatgagcctcaattcattttta--cactttgttgctgtttttttcttgcttggaatatattgggttaatttgtcgtatctccagACTCTATACCAAATGTTTATCGTCAATGCTGGTCCGGGCTTCCGGTTACTATGGAACACTGTGAAGTCCTTCCTTGATCCCAAAACGACCGCCAAGATAC
     || |    ||||||||  |  ||  |||  |  ||   |  ||||||||||     | | || |  |  |||    | | | ||||| ||||| ||||||||||| ||||||||||||||||| || ||| |  |||||||||||||||||||||| || || || ||||| ||  |||||||||
gtactgtcttctactcaattcgctgataagcacagtactgtgttaattttcttgctaacttttttttcg--tggttt--tatgtgttcagACCCTATATCAAATGTTTATTGTCAATGCTGGTCCGGGGTTTCGGCTCTTATGGAACACTGTGAAGTCCTTTCTGGACCCAAAAACCACTTCCAAGATAC

upper sequence: GRMZM2G073571_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA12G04460.1 (Glycine max), 3'ss of exon 5
--------------------------------------------------------------------------gtatgagcctc--aattcatttttacactttgttgctgtttttttcttgcttggaatatattgggttaatttgtcgtatctccagACTCTATACCAAATGTTTATCGTCAATGCTGGTCCGGGCTTCCGGTTACTATGGAACACTGTGAAGTCCTTCCTTGATCCCAAAACGACCGCCAAGATAC
                                                                           ||  ||  |   ||      | |  |||  | |      | || ||   ||   || | ||   |   ||| |  |   | |||||||| | ||||||||||||| | |||||||| || || ||  |||| |||||||||||||| ||||| |||||||||||||| || ||  | ||||| |
gtgtgtaacactgtcggtttctgtgtattttgttacattacgccccttgttttgatttcatcggttatatgaaattaaaagtttttaaagaagaatatgtactaaggtctcaactattgctgattttttattttttatttctttttttaatga-tacagACTCTCTGCCAAATGTTTATCATAAATGCTGGCCCTGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAGACAACTTCAAAGATTC

upper sequence: GRMZM2G073571_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA11G12260.1 (Glycine max), 3'ss of exon 5
----------------------------------------------------------------gtatgagcctcaattcatttttacactttgttgctgtttttttcttgcttggaatatattgggttaatttgtcgtatctccagACTCTATACCAAATGTTTATCGTCAATGCTGGTCCGGGCTTCCGGTTACTATGGAACACTGTGAAGTCCTTCCTTGATCCCAAAACGACCGCCAAGATAC
                                                                 ||  |   | ||        |  |||  | |      |||||||   |    || | ||   |   ||  |  |   | |||||||| | ||||||||||||| | |||||||| ||||| ||  |||| |||||||||||||| ||||| ||||||||||||||||| ||  | ||||| |
gtgagtaacactgccggtttctgtgtattatggcccttattttgatttcatccgatataggaaattaaaattgtaaagaagaacatgtactaaggtctcaactttttctgattattgatttgttatttctcttcttaatga-tacagACTCTCTGCCAAATGTTTATCATAAATGCTGGACCGGGATTTAGGTTGCTATGGAACACTGTCAAGTCTTTCCTTGATCCCAAAACAACTTCAAAGATTC

upper sequence: GRMZM2G073571_T03 (Zea mays), 3'ss of exon 5
lower sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 6
-----------------gtatgagcctcaattcatttttacactttgttgctgtttttttcttgcttg--gaatatat----tgggt--taatttgtcgtatctcc---agACTCTATACCAAATGTTTATCGTCAATGCTGGTCCGGGCTTCCGGTTACTATGGAACACTGTGAAGTCCTTCCTTGATCCCAAAACGACCGCCAAGATAC
                 ||         ||   ||  ||  | |   || |    ||  | | | |    |||||| |    ||| |  | |  | || || || |   ||||||| | ||||||||||||  ||||||||||||| |||||  || | || ||||||||||| ||| | || || ||||||||||| ||  ||||||| |
gtattcaacctttttctgttgacatgataagctatagttgtaatccatttcaaaattgatataggtgactgaatatgtgccctggatcttgaactctcttaactgctgcagACTCTCTGCCAAATGTTTATTATCAATGCTGGTCCTGGCTTTAGGCTGCTCTGGAACACTGTAAAGACTTTTCTAGATCCCAAAACAACTTCCAAGATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgctgtttttttcttgcttggaatatattgggttaatttgtcgtatctccagACTCTATACCAAATGTTTATCGTCAATGCTGGTCCGGGCTTCCGGTTACTATGGAACACTGTGAAGTCCTTCCTTGATCCCAAAACGACCGCCAAGATAC
                                 ggttaat  putative branch site (score: 4)
                                              tatctcc  putative PPT
        tttttttctt  TA-rich tract