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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGGCACTGGCACACCCTCTGTCTGTCGAAAATTATGAGAAGTTGAAGAGACAACAAATGAAACCTAATTTCTTAGATATGGTTCCTTGGTATTCAGGgtacgtctatgccaactgatcttttttctttttacatattttagcatctaccaatgtcttctttaaagtaggatacttgggctgatctgtctgattttctatttcag

Basic information

species Arabidopsis thaliana
transcript AT4G23000.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G23000.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G36310.1 (Glycine max), 5'ss of exon 5
GTGGGCACTGGCACACCCTCTGTCTGTCGAAAATTATGAGAAGTTGAAGAGACAACAAATGAAACCTAATTTCTTAGATATGGTTCCTTGGTATTCAGGgtacgtct--atgccaactgatcttttttctttttacatattttagcatctaccaatgtcttctttaaagtaggatacttgggctgatctgtctgattttctatttcag
 ||||| ||  | |||||  | |||||  || | ||||||||||||||||   |||||||||| ||| |||| ||||| |||||||||||||| || ||||| || |  ||   || |  | | ||| ||  ||   | ||  |   |      | |   | || || || |  |     |  || |    || | |   || | |||
ATGGGCTCTCACTCACCCATTATCTGTTAAAGAATATGAGAAGTTGAAGAAGAAACAAATGAAGCCTGATTTTTTAGACATGGTTCCTTGGTACTCTGGgtatgtatgcatataaaatattttgtttcctagtttttttttaaaattttatttcaaggggtgttgaaggttgtcttgaatgtgtggttacacttactaaataatgcag

upper sequence: AT4G23000.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 5'ss of exon 6
GTGGGCACTGGCACACCCTCTGTCTGTCGAAAATTATGAGAAGTTGAAGAGACAACAAATGAAACCTAATTTCTTAGATATGGTTCCTTGGTATTCAGGgtacgtctatgccaactgatcttttttc---tttttacatattttagcatctaccaatgtcttctttaaagtaggatacttgggctgatctgtctgattttctatttcag------------------
 ||||| ||  | |||||| |||| ||  || |||||||| ||||||||| | | |||||||| ||| ||||||| |||||||| ||||||||||| |||||  | |     |   |   ||| ||    | ||    | ||||       |  |  |  ||  ||  |  || | |  |  | | |   ||    | | ||   |  |                  
ATGGGCTCTTACTCACCCTTTGTCAGTTAAAGATTATGAGGAGTTGAAGAAAAAGCAAATGAAGCCTGATTTCTTGGATATGGTCCCTTGGTATTCGGGgtatatgttcaatattcgtcatttatttagttattcctttttttttatgaagaggagggggttagttggaa-agaaaatctcagttaactagttaactgtcctcactttgccgatgcttgtgttgcag

upper sequence: AT4G23000.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S72_100V6.1 (Physcomitrella patens), 5'ss of exon 4
GTGGGCACTGGCACACCCTCTGTCTGTCGAAAATTATGAGAAGTTGAAGA-GACAACAAATGAAACCTAATTTCTTAGATATGGTTCCTTGGTATTCAGGgtacgtctatgccaactgatcttttttctttttacatattttagca--tctaccaatgtcttctttaaagtaggatacttgggctgatctgtctgattttctatttcag
 |||||| || |||| |||| | | |     ||  |||    |  ||| | |||    | || | ||| | ||  | ||||||||||||||||||||||||| |||  |   ||  | |||||  |  | ||  |||  || | |   ||||    |||     |||  || |   |  |||| ||    ||   | ||      ||||
ATGGGCATTGACACATCCTCAGCCGGAGACGAAAAATGGACCGCAGAAAACGACTGTCACTGCA-CCTGAGTTTCTGGATATGGTTCCTTGGTATTCAGGgtgcgtggacttcatttcatcttagta-tcttagcattcttaaaccattctattgttgttgggcttac-gtggtgaaaatgggatg----gtggcaattggggggtcag

upper sequence: AT4G23000.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S147_29V6.1 (Physcomitrella patens), 5'ss of exon 5
GTGGGCACTGGCACACCCTCTGTCTGTCGAAAATTATGAGAAGTTGAAGAGACAACAAATGAAACCTAATTTCTTAGATATGGTTCCTTGGTATTCAGGgtac-gtctatgccaactgatcttttttctttttacatattttagcatctaccaatgtcttctttaaagtaggatacttgggct------gatctgtctgattttctatttcag----------------------------------------------------
 ||||||||  |||| |         | | ||   |||   |    |  |    ||  |  || ||| | || || ||||||||||||||||||||||||||  || | | |      |  ||  |  | | |   | | || ||| |   || | |  | | || | |    |  ||    |       |  |||   ||  | |  |  ||                                                    
ATGGGCACTCTCACATC---------TAGCAAGCAATGCACAACAAAGAAATACACTTACAAAGCCTGAGTTTTTGGATATGGTTCCTTGGTATTCAGGgtatagtttctactcctcaaatttcctagtatgtttgtgtatttgcaccatacattatactgtatatattttatttttttatttttttaaaaattgtagaatgatttgctctagagtatactctccatgttgaagtgtgcggggttgagcttggttgttgtggtag

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|164207747|gb|ES121342.1|ES121342
EST:     AGACAACAAATGAAACCTAATTTCTTAGATATGGTTCCTTGGTATTCAGG                         AACTTCAGCTGATTTGTTTAAAACTGTGTTTGACCTCCTCGTAT
genomic: AGACAACAAATGAAACCTAATTTCTTAGATATGGTTCCTTGGTATTCAGGgtacgtctat ... tctatttcagAACTTCAGCTGATTTGTTTAAAACTGTGTTTGACCTCCTCGTAT
EST: gi|164130630|gb|ES149364.1|ES149364
EST:     AGACAACAAATGAAACCTAATTTCTTAGATATGGTTCCTTGGTATTCAGG                         AACTTCAGCCTGATTTGTTTAAAACTGTGTTTGACCTCCTCGTAT
genomic: AGACAACAAATGAAACCTAATTTCTTAGATATGGTTCCTTGGTATTCAGGgtacgtctat ... tctatttcagAACTTCAGC-TGATTTGTTTAAAACTGTGTTTGACCTCCTCGTAT