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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcctgcgcgtacaacgacatgcgtccatgattgatttaacacttgatctttcactgtgaactctcaactccgaggtgaccatctatttttgcattgcagACAGACAAAGGTGATGAAGAATTGTGTAGTGTTTATGTGCCAACCAATCATTTATATATCGGTGACATCTTTTTGGTAAACTCCACCGACATTATAAGGC

Basic information

species Zea mays
transcript GRMZM2G073415_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073415_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g36110.2 (Oryza sativa), 3'ss of exon 5
-----ttcctgcgc-gtacaacgacatgcgtccatgattgatttaacacttgatctttcactgtgaactctcaactccgaggtgaccatctatttttgcattgcagACAGACAAAGGTGATGAAGAATTGTGTAGTGTTTATGTGCCAACCAATCATTTATATATCGGTGACATCTTTTTGGTAAACTCCACCGACATTATAAGGC
     ||  ||| | || ||||  |||    |||| ||| || ||  | |    ||||   | ||  |      ||| ||| ||| ||| || | |||| || ||||| |||||||||||||||||| |||| ||||| |||||||||||||||||| ||||||||||||||||||| ||||| |  ||    || ||||||||||
atattttgttgctctgtgcaacttcataacgccattatt-atctatgattgacactttttttctgtgc-----gctctgagatgatcatttaatattgctttacagACTGACAAAGGTGATGAAGAACTGTGCAGTGTATATGTGCCAACCAATCATCTATATATCGGTGACATCTTCTTGGTTAGGTCTGAGGAGATTATAAGGC
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|149096886|gb|EE182683.2|EE182683
EST:     CAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG        
genomic: GTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAGgtactttttc ... tgcattgcagA
EST: gi|67012407|gb|CO441156.1|CO441156
EST:     CAATTATTAGTCATCCCCGTGTTGGTGAATATGCATTTGGATTCATAACATCAACCATGGTTCTTCAG        
genomic: GTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAGgtactttttc ... tgcattgcagA
EST: gi|60341304|gb|DN208277.1|DN208277
EST:     CAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG        
genomic: GTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAGgtactttttc ... tgcattgcagA
EST: gi|76291080|gb|DV030648.1|DV030648
EST:     CAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG        
genomic: GTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAGgtactttttc ... tgcattgcagA
EST: gi|91055827|gb|EB166245.1|EB166245
EST:     CAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG        
genomic: GTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAGgtactttttc ... tgcattgcagA
EST: gi|149104749|gb|EE290203.2|EE290203
EST:     CAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG        
genomic: GTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAGgtactttttc ... tgcattgcagA
EST: gi|60347004|gb|DN213977.1|DN213977
EST:     CAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG        
genomic: GTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAGgtactttttc ... tgcattgcagA
EST: gi|78121574|gb|DV539958.1|DV539958
EST:     GATTCATAACATCAACCATGGTTCTTCAG                         ACAGACAAAGGTGATGAAGAATTGTGTAGTGTTTATGTGCCAACCAATCAT
genomic: GATTCATAACATCAACCATGGTTCTTCAGgtactttttc ... tgcattgcagACAGACAAAGGTGATGAAGAATTGTGTAGTGTTTATGTGCCAACCAATCAT
EST: gi|211119697|gb|FL001617.1|FL001617
EST:     CAATTATTAGTCATCCCCGTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAG        
genomic: GTGTTGGTGAATATGCGTTTGGATTCATAACATCAACCATGGTTCTTCAGgtactttttc ... tgcattgcagA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatctttcactgtgaactctcaactccgaggtgaccatctatttttgcattgcagACAGACAAAGGTGATGAAGAATTGTGTAGTGTTTATGTGCCAACCAATCATTTATATATCGGTGACATCTTTTTGGTAAACTCCACCGACATTATAAGGC
 acttgat  putative branch site (score: 5)
                                     tctattttt  putative PPT
                                    atctattttt  TA-rich tract