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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACTACTTAGAGTACATCAAGAGGGAGAAGAATGGAGCTCTTCAAGCATTTTTTGTGAACCATGTAAACAATTGGGTCACACGAGCGTATTGTGACAAGgtgaatcatctactctatttcttcaagccttgttctgttgcttgaatcctctttactaataaatagtacacgagctaatacatattttctactcatgaaag

Basic information

species Arabidopsis thaliana
transcript AT3G11670.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G11670.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os04g34000.1 (Oryza sativa), 5'ss of exon 5
AAACTACTTAGAGTACATCAAGAGGGAGAAGAATGGAGCTCTTCAAGCATTTTTTGTGAACCATGTAAACAATTGGGTCACACGAGCGTATTGTGACAAGgtgaatcatctactctatttcttcaagccttgttctg-ttgcttgaatcctctttactaataaatagtacacgagctaatacatattttctactcatgaaag
||| ||| ||||||| |||||||| ||||||||||||||||||||||| ||  |||| || ||| | ||||| ||||| ||  |||| || ||| | |||||      | | ||    |  |  ||     |  ||| ||||| |  |     ||| ||||   | | |  |                              
AAATTACCTAGAGTATATCAAGAGAGAGAAGAATGGAGCTCTTCAAGCTTTCCTTGTTAAGCATATCAACAACTGGGTGACTAGAGCATACTGTCATAAGgtattgtgtttgcttgtctcgtgtaaaa---gccctgattgctagggtgaaactta-taatgggt-gcatgcag----------------------------

upper sequence: AT3G11670.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os11g05990.1 (Oryza sativa), 5'ss of exon 5
AAACTACTTAGAGTACATCAAGAGGGAGAAGAATGGAGCTCTTCAAGCATTTTTTGTGAACCATGTAAACAATTGGGTCACACGAGCGTATTGTGACAAGgtgaatcatctactctatttcttcaagcctt--gttctgttgcttgaatcctctttactaataaatagtacacgagctaatacatattttctactcatgaaag-----------------------------------
||| || || |||||||| || |||||||||||||| | | ||||||| ||||||||||| ||  | ||||||| |||  |  |||| |||||  | ||||| | |||  ||       ||| |||   |   ||      |  ||||   ||| |  |  ||  ||   ||  ||     | | ||| | || |   |                                       
AAATTATTTGGAGTACATTAAAAGGGAGAAGAATGGTGTTATTCAAGCCTTTTTTGTGAAGCACATCAACAATTTGGTTGCCAGAGCATATTGCCATAAGgt-actcaattaagtagggtctgcaatgttcaagtgtgacagtgtgaagtttctatcatg-tagctaacgcataagtattcaaaaattatgtaatttagttgattttccttactgagctgatggttggtacaacgtag

upper sequence: AT3G11670.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G175453_T02 (Zea mays), 5'ss of exon 6
AAACTACTTAGAGTACATCAAGAGGGAGAAGAATGGAGCTCTTCAAGCATTTTTTGTGAACCATGTAAACAATTGGGTCACACGAGCGTATTGTGACAAGgtg---aatcatctactctatttcttcaagccttgttctgtt-gcttgaatcctctttactaa-taaatagtacacgagctaatacatattttctactcatgaaag----------
||| || || |||||||||||||||||||||||||| ||| |||| || ||||| || || ||  | || ||   |||| |  |||| |||||  | |||||    |   |  ||   |||| ||   |   |||  |  |  |  |||    |  ||    | || ||   |  |    || |   | |   ||  |  ||              
AAATTATTTGGAGTACATCAAGAGGGAGAAGAATGGTGCTATTCAGGCCTTTTTCGTTAAGCACATTAATAACCTGGTCGCCAGAGCTTATTGCCATAAGgtactcagcgaattatattattcctctgatgtttgagccatccgtgtgatgtgtggttgtagactatattacatgctgtttattgtttgtagcctgatggtgtctatgctatgtag

upper sequence: AT3G11670.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G092588_T01 (Zea mays), 5'ss of exon 3
AAACTACTTAGAGTACATCAAGAGGGAGAAGAATGGAGCTCTTCAAGCATTTTTTGTGAACCATGTAAACAATTGGGTCACACGAGCGTATTGTGACAAGgtgaatcatcta-ctctatttcttcaagccttgttctgttgct--tgaatcctctttactaataaatagtacacgagctaatacatattttctactcatgaaag
||||||| | || || |||||||| |||||||||||||||||||| || ||| | || || ||  | ||||||||||| ||  |||| || |||||||||||   |  | || ||   ||  ||      ||   | | |||   ||||  ||| | |    | | |  |  |                               
AAACTACCTGGAATATATCAAGAGAGAGAAGAATGGAGCTCTTCAGGCCTTTCTAGTTAAACACATCAACAATTGGGTGACCAGAGCATACTGTGACAAGgtactttgtatagcttagttgttttgttaattacacggatgcccatgaacactcctaat--gttattcatctatag----------------------------

upper sequence: AT3G11670.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G38720.1 (Glycine max), 5'ss of exon 5
AAACTACTTAGAGTACATCAAGAGGGAGAAGAATGGAGCTCTTCAAGCATTTTTTGTGAACCATGTAAACAATTGGGTCACACGAGCGTATTGTGACAAGgtg-aatcatctactctatt--tcttcaagccttgttctgttgcttgaatcctctttactaataaatagtacacgagctaatacatattttctactcatgaaag-----
||| |||||||| ||||||||||||||||| ||||| || || |||||||| || ||||| ||  ||||||| ||||| ||| |||| || ||  |||||||   |  || ||   |  |  | |  |||| | | |    |    ||| |   || |||   || |  |    | |||  | | |  |   ||       |||     
AAATTACTTAGAATACATCAAGAGGGAGAAAAATGGGGCACTCCAAGCATTCTTCGTGAAACACATAAACAACTGGGTTACAAGAGCATACTGCCACAAGgtatgagaatttatcatcctagtatgtaagcttggattaagta---gaagctaattgact--caact--tttttgggct--tcccttctccttaaaaccagaagctcct

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|125039221|gb|EL111490.1|EL111490
EST:     TTTTTGTGAACCATGTAAACAATTGGGTCACACGAGCGTATTGTGACAAG                         GTTCTTCGCCTCTCTGCGGCAACACAAGATTTACCAAAG
genomic: TTTTTGTGAACCATGTAAACAATTGGGTCACACGAGCGTATTGTGACAAGgtgaatcatc ... ctcatgaaagGTTCTTCGCCTCTCTGCGGCAACACAAGATTTACCAAAG
EST: gi|125044263|gb|EL116532.1|EL116532
EST:     TTTTGTTGAACCATGTAAACAATTGGGTCACACGAGCGTATTGTGACAAG                         GTTCTTCGCCTCTCTGCGGCAACACAAG
genomic: TTTTG-TGAACCATGTAAACAATTGGGTCACACGAGCGTATTGTGACAAGgtgaatcatc ... ctcatgaaagGTTCTTCGCCTCTCTGCGGCAACACAAG