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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gccagtattttctcctcgttttttgccacctttcatccagcagccacatcatctctcttcattatctcacccatttatatgtttgaacaattgctgatgcagcttatttctgtttcacagGTCATAAACGTGCACTTGATGTTACTTCTGTTGTGCAGGGAAACACAAGGTTCTTTAGTGTCCTGATGCTTACATGGG

Basic information

species Zea mays
transcript GRMZM2G057475_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G057475_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g37580.2 (Oryza sativa), 3'ss of exon 4
gccagtattttctcctcgttttttgccacctttcatcca-gcagccacatcatc--tctcttcattatctcacccatttatatgtttgaacaattgctgatg-cagcttatttctgtttcacagGTCATAAACGTGCACTTGATGTTACTTCTGTTGTGCAGGGAAACACAAGGTTCTTTAGTGTCCTGATGCTTACATGGG
                   ||   |  |    |||||   |   ||| ||  |   ||   |||  || |  ||  ||| | ||||   | || | |||||| ||||||    ||||| ||||||||| || ||| | ||||||||||| ||||||||||||||||| |||||||| ||||||||| |||||||||| ||||
-------------------ttaacgtaaatagtcatctgtgtttccatattgtaaatcctctcaaaatatttccattttctgtgttaata-aagtactgatggcagctt----ctgttgcacagGTCACAAGCGTCCCCTTGATGTTACCTCTGTTGTGCAGGGAAAGACAAGGTTTTTTAGTGTCTTGATGCTTACTTGGG

upper sequence: GRMZM2G057475_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g37580.3 (Oryza sativa), 3'ss of exon 1
----------------gccagtattttctcctcgttttttgccacctttcatcca-gcagccacatcatc--tctcttcattatctcacccatttatatgtttgaacaattgctgatg-cagcttatttctgtttcacagGTCATAAACGTGCACTTGATGTTACTTCTGTTGTGCAGGGAAACACAAGGTTCTTTAGTGTCCTGATGCTTACATGGG
                 ||       || || || ||   |  |    |||||   |   ||| ||  |   ||   |||  || |  ||  ||| | ||||   | || | |||||| ||||||    ||||| ||||||||| || ||| | ||||||||||| ||||||||||||||||| |||||||| ||||||||| |||||||||| ||||
gcaagtctctaccccccccccccaaatccccacggttaacgtaaatagtcatctgtgtttccatattgtaaatcctctcaaaatatttccattttctgtgttaata-aagtactgatggcagctt----ctgttgcacagGTCACAAGCGTCCCCTTGATGTTACCTCTGTTGTGCAGGGAAAGACAAGGTTTTTTAGTGTCTTGATGCTTACTTGGG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcacccatttatatgtttgaacaattgctgatgcagcttatttctgtttcacagGTCATAAACGTGCACTTGATGTTACTTCTGTTGTGCAGGGAAACACAAGGTTCTTTAGTGTCCTGATGCTTACATGGG
                          tgctgat  putative branch site (score: 3)
                                     cttatttctgtttc  putative PPT
       atttatatgtttgaa  TA-rich tract