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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGAGGACATCTATATCAATGCAGTTCTTCCCGCGCTTTTTCTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactacatatgtctttttggtgacctatattggcaagaaactactggaatatcctatcgatatatgacttgcatatttctgtatttatcag

Basic information

species Oryza sativa
transcript LOC_Os03g45770.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g45770.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM5G814310_T01 (Zea mays), 5'ss of exon 3
TGTGAGGACATCTATATCAATGCAGTTCTTCCCGCGCTTTTTCTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactacat---atgtctttttggtgacctatattggcaagaaactactggaatatc-ctatcgatatatgacttgcatatttctgtatttatcag
|||| ||||||| ||||| ||||||||||| || ||||| |||||||||||||| ||||||||||| || ||||||||||| || || |||||||||  |  ||   |  |||||||  |||| |  | |    |  ||||| ||  | ||  ||  || | ||||||||     || |            
TGTGCGGACATCCATATCGATGCAGTTCTTTCCACGCTTCTTCTTGCTGTATTTTTTGGTTTTCCATATCTACTTCTTCTCATATACCTATGgtatgtgtgtatcaaacttcttttttctgac-tgaactattgattaactaatgacacatttctggcgctttatgacttatgctttaccag---------

upper sequence: LOC_Os03g45770.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA08G19970.1 (Glycine max), 5'ss of exon 12
TGTGAGGACATCTATATCAATGCAGTTCTTCCCGCGCTTTTTCTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactacatatgtctttttggtgacctatattggcaagaaactactggaatatcctatcgatata-tgacttgcatatttctgtatttatcag
|||  | ||| | ||||||||| ||||||| || ||||| || |||||||||||| |||| |||||||| || |||||||| ||  | |||||||||  | | ||    ||||   |    |   || |   |    ||    ||| || | | || ||| ||| ||  | |||||            
TGTCCGAACACCAATATCAATGAAGTTCTTTCCTCGCTTCTTTTTGCTGTATTTCCTGGTCTTCCACATATATTTCTTCTCTTATGCTTATGgtatg--ttcgtactatttttctattttttggtttagttggc--ttaagttaatttcatttggaaataatgagttttaaatttccag---------

upper sequence: LOC_Os03g45770.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA15G05080.1 (Glycine max), 5'ss of exon 12
TGTGAGGACATCTATATCAATGCAGTTCTTCCCGCGCTTTTTCTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactacatatgtctttttggtgacctatattggcaagaaactactggaatatcctatcgatata-tgacttgcatatttctgtatttatcag
|||  | ||| | ||||||||| ||||||| || ||||| || |||||||||||| |||| |||||||| || |||||||| ||  | || ||||||   | |  ||| ||| |  |      | ||||        ||    ||| || | | || ||| ||| ||  | ||||             
TGTCCGAACACCAATATCAATGAAGTTCTTTCCTCGCTTCTTTTTGCTGTATTTCCTGGTCTTCCACATATATTTCTTCTCTTATGCTTACGgtatggtcatac-tgtttttctatt------tgttggt------ttaagttaatttcatttggaaataatgagttttaaattttcag---------

upper sequence: LOC_Os03g45770.2 (Oryza sativa), 5'ss of exon 11
lower sequence: AT1G60995.1 (Arabidopsis thaliana), 5'ss of exon 13
TGTGAGGACATCTATATCAATGCAGTTCTTCCCGCGCTTTTTCTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactacatatgtctttttggtgacctatattggcaagaaactactggaatatcctatcgatatatgacttgcatatttctgtatttatcag
||| |||||| | ||||| ||| ||||||||||||| || ||||||||||| |||||||| ||||| ||||| |||||||| ||  ||||||||| ||    || ||  |||  | |    ||| |     |  |||||||| ||   |  |    |  |     ||||||  |||  |        
TGTCAGGACACCAATATCGATGAAGTTCTTCCCGCGTTTCTTCTTGCTGTACTTCTTGGTGTTCCATATTTATTTCTTCTCATATGCATATGgtaaga---gatgtggttttacgtta---tatttgtctcattaactactgaaactgcagacgcgttcacttactgcataactctccacag-----

upper sequence: LOC_Os03g45770.2 (Oryza sativa), 5'ss of exon 11
lower sequence: PP1S96_202V6.1 (Physcomitrella patens), 5'ss of exon 13
TGTGAGGACATCTATATCAATGCAGTTCTTCCCGCGCTTTTTCTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactacatat--gtctttttggtgacctatattggcaagaaactactggaatatcctatcgatatatgacttgcatatttctgta-tttatcag--
 ||||||||  |  |||| ||||||||||| || ||||| || || || |||||| ||| ||||||||||||||||||||| || || || ||||    |   |||  |  |  |   | |||| | |          || |   |  |     | |||   ||   |||   |   |  | || |||    
CGTGAGGACGCCCCTATCGATGCAGTTCTTTCCTCGCTTCTTTTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttctttatcagcttcctatttcacctctgtgtttgcttttcttccttagcagtaatttgattgttgctgtgctgttgcttaaagttcatctatt

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|58685897|gb|CK074584.1|CK074584
EST:     CTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATG                         GCTTCTCCTACCTGGCCTTTTCTGCCACCGCGGCGTTCATGCAACATCTAA
genomic: CTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactac ... tatttatcagGCTTCTCCTACCTGGCCTTTTCTGCCACCGCGGCGTTCATGCAACATCTAA
EST: gi|58695202|gb|CK083889.1|CK083889
EST:     CTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATG                         GCTTCTCCTACCTGGCCTTTTCTGCCACCGCGGCGTTCATGCAACATCTAA
genomic: CTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactac ... tatttatcagGCTTCTCCTACCTGGCCTTTTCTGCCACCGCGGCGTTCATGCAACATCTAA
EST: gi|2443167|gb|C74938.1|C74938
EST:     CTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATG                         GCTTCTCCTACCTGGCCTTTTCTGCCACCGCGGCGTTCATGCAACATCTAA
genomic: CTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactac ... tatttatcagGCTTCTCCTACCTGGCCTTTTCTGCCACCGCGGCGTTCATGCAACATCTAA
EST: gi|218491801|gb|FG954125.1|FG954125
EST:     CTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATG                         GCTTCTCCTACCTGGCCTTTTCTGCCACCGCGGNGTTCATGCAACATCTAA
genomic: CTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactac ... tatttatcagGCTTCTCCTACCTGGCCTTTTCTGCCACCGCGGCGTTCATGCAACATCTAA