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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTACATTGACTGATACTCCTGCCATCCTTGTTTTTGTTGCTCGGAAGGTGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAGgtatacggatcatgtggtttagcaatatatttaggtcatatgcaattacataatgaatttactgtgtcatacatag

Basic information

species Oryza sativa
transcript LOC_Os08g31470.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g31470.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G150212_T03 (Zea mays), 5'ss of exon 4
GGGTACATTGACTGATACTCCTGCCATCCTTGTTTTTGTTGCTCGGAAGGTGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAGgtatacgga--------tcatgtggtttagcaatatatttaggtcatatgcaattacataatgaatttactgtgt--catacatag
 || ||||||||||| || |||||||||||||| ||||||||||| ||||| ||||||||||||||||||||||| || || ||||| | |  ||||||||||  |           |||||| |||||  ||  |||||| | ||| || ||| |||||     ||   ||  |  |||| | ||
AGGAACATTGACTGACACACCTGCCATCCTTGTGTTTGTTGCTCGAAAGGTTCACAGGAAGTGGCTCAGCCCTACTCAATGTCTTCCAGGTGCCCTTGAGgtaggcacgattttgtttcatgtagtttacaaagttatttaagccatctg-aatcacata-cagtttcgttgcattccataaacag

upper sequence: LOC_Os08g31470.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G078541_T01 (Zea mays), 5'ss of exon 3
GGGTACATTGACTGATACTCCTGCCATCCTTGTTTTTGTTGCTCGGAAGGTGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAGgtatacgga---------tcatgtggtttagcaatatatttaggtcatatgcaattacataatgaattt-actgtgtcatacatag--------------
 || ||||||||||| || |||||||||||||| ||||||||||| ||||| |||||||||||||||||| |||| || || |||||  ||  ||||||||||  |            |||||| |||||  |   || ||| | ||| || ||  ||||| | ||||| |      | ||   |               
AGGAACATTGACTGACACACCTGCCATCCTTGTGTTTGTTGCTCGAAAGGTTCACAGGAAGTGGCTCAGCGCTACTCAATGTCTTCCAACTGCCCTTGAGgtaggcatgatgtttgtttcatgtagtttacaatgttacttaagccatctgaaaccacatattcaatttcatccaagcttattaaaacgataaaaagttg
















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|58673834|gb|CK062520.1|CK062520
EST:     TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAG                         GGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
genomic: TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAGgtatacggat ... tcatacatagGGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
EST: gi|58656568|gb|CK045248.1|CK045248
EST:     TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAG                         GGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
genomic: TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAGgtatacggat ... tcatacatagGGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
EST: gi|58657604|gb|CK046284.1|CK046284
EST:     TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAG                         GGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
genomic: TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAGgtatacggat ... tcatacatagGGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
EST: gi|58662040|gb|CK050720.1|CK050720
EST:     TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAG                         GGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
genomic: TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAGgtatacggat ... tcatacatagGGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
EST: gi|58609731|gb|CK037764.1|CK037764
EST:     GTGCCTTCCGGCTCACCTTGAG                         GGACCGGGGGGAGTGTGGTGTGATGTCGATGTGGTGGAATTCTCTTACTAT
genomic: GTGCCTTCCGGCTCACCTTGAGgtatacggat ... tcatacatagGGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
EST: gi|58599160|gb|CK009688.1|CK009688
EST:     TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAG                         GGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
genomic: TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAGgtatacggat ... tcatacatagGGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT
EST: gi|29616426|gb|CB621438.1|CB621438
EST:     TGCACAGGAAGTGGCTCAGCACTACACAGTGCCTTCCGGCTCACCTTGAG                         GGACCGGGGGGAGTGTGGTGTGATGTCTATGTTGTTGAATTCTCTTACTAT
genomic: TGCACAGGAAGTGGCTCAGCCCTACACAGTGCCTTCCGGCTCACCTTGAGgtatacggat ... tcatacatagGGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTAT