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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggtttttaattaatcaaataagaatagagttttccctgtgcaaactgtattgtcattactcagaagtgaaaccgtttgttctgccttcactgattaacag

Basic information

species Oryza sativa
transcript LOC_Os06g49990.3
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49990.2 (Oryza sativa), 5'ss of exon 13
lower sequence: GRMZM2G116434_T01 (Zea mays), 5'ss of exon 13
CCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggtttttaattaatcaaa-taagaatagagttttccctgtgcaaactgtattgtcattactcagaagtgaaaccgtttgttctgccttcactgattaacag
||| ||||| ||||| ||||| ||||||||||| |||||||||||||| ||||||||||| ||||||||||| ||||| ||||||||||| ||||| ||||||| | ||| |  |||| | |   |||     |  ||||||| | |               ||||| |||| | ||| |    |   || |  | | || ||
CCTCGGTGACTGTGGCCGAGCTGCAATCCAGACACAAGGCTCCATGAACAATCCATTTGGATCAACTTTTGTATATGGTTATCAGAATATCGCTTTCGAGgtgggtgttattagatcacactccaaatctgtgtccccctgtgtata---------------tcagatgtgacatcgtgt----tatttttatgggtcaatag

upper sequence: LOC_Os06g49990.2 (Oryza sativa), 5'ss of exon 13
lower sequence: Vv04s0023g02970.t01 (Vitis vinifera), 5'ss of exon 13
CCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggtttttaattaatcaaataagaatagagttttccctgtgcaaactgtattgtcattactcagaagtgaaaccgtt-tgttctgccttcactgattaacag--------------------------------------------------------------------------------
|||||| || ||||| || ||||| || || |||||||| || |  || ||||||||||| || |||||||| ||||| ||||| ||| |||| |||||||||| || |   | |  |   ||     | ||||| | | || |||||   || ||  || ||| |      |||    |||||||  | |  |   ||                                                                                    
CCTTGGGGACTGTGGCCGTGCAGCTATTCAAACGCAAGGTTCTACAAACAATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttattgatgaatactcaatccatgtgttttgctt-tggaaacttctttatc--tattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcag
















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|88445930|gb|CI549653.1|CI549653
EST:     TCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAG                         GTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG
genomic: TCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggttttta ... tgattaacagGTCATGAAAAATGGATATATTGCAACTGTTACCCTCTTTCAATCATGAG