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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCGATATGGGAGCTTGGGCAATGAATGTGATAAGCTCCGTTGGAATCATCATGGCGAATAAACAACTTATGTCCTCTTCTGGATTCGCATTTAGTTTCGgttcgtcttcttcctccgatctctcactctttttaatcaatttcgcttttgagatctgatgatttttccgatctctgttttctcag

Basic information

species Arabidopsis thaliana
transcript AT5G42420.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G42420.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S116_49V6.1 (Physcomitrella patens), 5'ss of exon 2
TCCGATATGGGAGCTTGGGCAATGAATGTGATAAGCTCCGTTGGAATCATCATGGCGAATAAACAACTTATGTCCTCTTCTGGATTCGCATTTAGTTTCGgttcgtcttcttcctccgatctctcactcttttta-atcaatt-tcgctttt-gagatctgatgatttttccgatctct-gttttctcag------------------------------------------------------------------------------------------------------------
|| |||  ||| || ||||| |||||||| || ||||| ||||||||||||||||| || || ||  | |||||  |  |||| |  |     | |||||||| |      |||   | |  |  |  |||| || |||| || |  || |  ||     ||| | ||   |||  ||| | |    ||                                                                                                             
TCTGATGCGGGCGCATGGGCCATGAATGTAATCAGCTCTGTTGGAATCATCATGGCTAACAAGCAGGTCATGTCGGCAGCTGGCTATG-----ACTTTCGGTTTGgtgagatcccgagcttgcagaaactttgtacatcagttcttactatcagaagagagattacttggtcgaagtctcgctacgacattcaagagctgtctgtaaccttcagggataataggagttcccatacgtgtcagcaaacgtaatgagctttttcttttttctgattattttgctgaattatgttgtgcag

upper sequence: AT5G42420.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S15_387V6.1 (Physcomitrella patens), 5'ss of exon 2
TCCGATATGGGAGCTTGGGCAATGAATGTGATAAGCTCCGTTGGAATCATCATGGCGAATAAACAACTTATGTCCTCTTCTGGATTCGCATTTAGTTTCGgt-------tcgtcttc-------ttcctccgatctctcactcttt---ttaatcaatttcgcttttg-agatctgatgatttttccgatctctgttttctcag-----------------------------------------
|| ||| | || ||||||||||||||  | || |||||||| || ||||||||||||||||| ||| |||||||| |    || | |   |  || || |||       |||            ||| || ||  |    |  | |   || ||  ||| | || |   | | ||  |||||| |          |  || ||                                          
TCAGATGTCGGGGCTTGGGCAATGAACATTATCAGCTCCGTGGGGATCATCATGGCGAATAAGCAAGTTATGTCCGCAGGGGGCTACAACTACAGATTTGgtaaggaagtcgctcaagattgagttcatcagaggtggtgccgtgtagttttatggattactctgtgacacaactattgatttattttggtcgaatcatcacatagctgtgtttgctgagtaaaagtctcgtgtatttgccgcag

upper sequence: AT5G42420.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S15_388V6.3 (Physcomitrella patens), 5'ss of exon 2
TCCGATATGGGAGCTTGGGCAATGAATGTGATAAGCTCCGTTGGAATCATCATGGCGAATAAACAACTTATGTCCTCTTCTGGATTCGCATTTAGTTTCGgttcgtcttctt---cctc------cgatctctcactcttttta-atcaatttcgcttttgagatctgatgattt--ttccgatctct---gttttctcag-------------------------------------------------------------------------------------
|| ||| ||||||||||||| |||||| | || ||||| ||||| || |||||||| ||||||||| |||||||       || | ||  || || || |||  |  |||     || |      |||||||  ||  |  |    |   ||||||  ||     |  | ||||   || | | | ||   |||  | |||                                                                                     
TCAGATGTGGGAGCTTGGGCCATGAATATTATCAGCTCTGTTGGTATTATCATGGCTAATAAACAAGTTATGTCGAAAGGAGGTTACGACTTCAGATTTGgtgaggtttcacgagccacatatggcgatctcgaaccatgctcgtgtttctttcgccgtttgttacctacgattcagttgcaaaccctcaggttgacgcagtagggtaatggacctgggatttatagccattggatgttcattgcatgaattccatcttctcttactggctaattcctggatgcag

upper sequence: AT5G42420.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S54_317V6.1 (Physcomitrella patens), 5'ss of exon 2
TCCGATATGGGAGCTTGGGCAATGAATGTGATAAGCTCCGTTGGAATCATCATGGCGAATAAACAACTTATGTCCTCTTCTGGATTCGCATTTAGTTTCGgttcgtcttcttcct---ccgatctctcactctttttaatcaatttcgcttttgagatctgatgatttttccgatctctgttttctcag----------------------------------------------------
||  || | |||||||||||||||||  | || ||||| || || ||||||||||||||||| ||| |||||||       || | |   |  || || |||  |   |    |       |    ||  |  | ||  |  | |  ||| | ||  | ||  || ||||||    |  |     | |                                                     
TCAAATGTCGGAGCTTGGGCAATGAACATTATTAGCTCTGTGGGGATCATCATGGCGAATAAGCAAGTTATGTCTGTAGGGGGCTACAACTACAGATTTGgtaagaaatagcacgagattaaaggttcgtttgtattcgtttagtgtgctctagatctttgcagagttttccacgattcgaccagtgattatttgtgtcaaatttgtgtgatcgttttgctgatacgtgtacttgctgcag

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|125215521|gb|EL229605.1|EL229605
EST:     CATGGCGAATAAACAACTTATGTCCTCTTCTGGATTCGCATTTAGTTTCG                         CTACAACTCTCA
genomic: CATGGCGAATAAACAACTTATGTCCTCTTCTGGATTCGCATTTAGTTTCGgttcgtcttc ... gttttctcagCTACAACTCTCA