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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattattattgtttatacagttaaatcttaatagctgataaaaaaccgcagtattttttgactatatgtctcttcttgcttttgtag

Basic information

species Arabidopsis thaliana
transcript AT5G56500.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G56500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 5'ss of exon 6
CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattattattgtttatacagttaaatct--taatagctgat--aaaaaaccgcagtattttttgactatatgtctcttcttgcttttgtag
 || || ||||| || |||||||| ||||| |||||||||||||| || || ||||| || ||||| |||||||||| |||||||||||||||||||||||||   | |   |    |||  ||   ||  |    |||| |  ||       |||| | || |  |  ||||| ||  ||   |||     
TCTCTATGTTGTGGAGGGAATGCAGTTTGAACGTGGTTATATCTCCCCGTATTTTGTAACTGACAGCGAGAAAATGTCTGCAGAATATGAGAACTGCAAGgtagcttcagcctgagcacacatacccctgctgtatgctgctttaatctgtttcagtttcttattgcactatgtttccactatttttcag--

upper sequence: AT5G56500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os02g01280.1 (Oryza sativa), 5'ss of exon 6
CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattat-tattgtttatacagttaaatcttaatagctgataaaaaaccgcagtattttttgactatatgtctcttcttgcttttgtag--------------
 || || |||||||| ||||||||||||||||| || ||||| ||||| |||||||| || |||||||| |||||||  |  || |||||||| |||||||| | ||  ||| |  |    | |  |  | ||  |   || ||  |       |||| | | || ||||  | ||  ||||  ||| |              
TCTCTATGTTGTTGAGGGAATGCAATTTGATCGCGGCTATATTTCTCCCTACTTTGTAACTGACAGTGAAAAAATGTCAGTGGAGTATGAGAATTGCAAGgtttgatgcattctagaattcggtgtacttaaactgtgcattaaccagatactcatttgtgggctctatgcat-ttgatgctaatgttgattctatcacccag

upper sequence: AT5G56500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G083716_T04 (Zea mays), 5'ss of exon 5
CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattattattgtttatacagttaaatcttaatagctgataaaaaaccgcagtatttttt---gactatatgtctcttcttgctt-ttgtag----------------------------------------------------------------------------------------
 || || ||||| || |||||||||||||| |||||||| |||||||| |||||||| || |||||||||||||||  |||||| || |||||||||||||||    ||   | |      | || ||||  |   |        |  ||  |  | |||    |  | |       |||  | | |||  |                                                                                        
TCTCTATGTTGTGGAGGGAATGCAATTTGACCGTGGTTACATCTCTCCGTACTTTGTAACAGACAGTGAGAAAATGACTGCAGAGTACGAGAACTGCAAGgtaactgtaaaatatgagatatcaattcttttttttttgctgtttattgctttcctgtttcaaaagaaaaaaaaaactctgacctattggggggtgggggtaagacagttcctaggcaaacagcagttgctttcctgtttcagactattaatgctattgtctttcatcttcattgttcag

upper sequence: AT5G56500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattat--------tattgtttatacagttaaatcttaatagctgataaaaaaccgcagtattttttgactatatgtctcttcttgcttttgtag------------
||| ||   |||||| |||||||| ||||| ||||| ||||| ||||| |||||||| || |||||||| ||||||   |  || ||||||||||||||||| | ||        |  |  || |||    || |||  |  |||    |  ||  ||||| |||| |||||      | |||   |   || ||             
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagt-ttttatgacttctgtacgcttacggtgattttaattctattaccag

upper sequence: AT5G56500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G40110.1 (Glycine max), 5'ss of exon 5
CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattattattgtttata---cagttaaatcttaatagctgataaaaaaccgcagtattttttgactatatgtctcttcttgcttttgtag
 || || ||||| || || ||||||||||| ||||||||||| ||||| |||||||| || |||||||||||||||   |  |||||||||||||| ||||| | |   |||| | |    |   ||| |  | ||   |  | || | ||    |||||  | |  |  |  |      || || || ||
TCTATATGTTGTCGAGGGGATGCAATTTGACCGTGGTTATATTTCTCCATACTTTGTTACTGACAGTGAGAAAATGGCCGTTGAATATGAGAACTGTAAGgtgtgacatttgtctgttttccctgtaacttgttattattttttaacatccttcatatttaattataactttacatggtatg-ttatgcag

upper sequence: AT5G56500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA08G18760.2 (Glycine max), 5'ss of exon 5
CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattattattgtttatacagttaaatcttaatagctgataaaaaaccgcagtattttttgactatatgtctcttcttgcttttgtag
 || || |||||||| || |||||||| || ||||||||||| ||||| ||||| || || |||||||||||||||  ||  || ||||||||||| |||||   |   |||| | |            | ||   |  | || | ||   ||||||  | | ||  | | | |  |   || || ||
TCTGTATGTTGTTGAGGGGATGCAATTCGACCGTGGTTATATTTCTCCATACTTCGTTACTGACAGTGAGAAAATGGCTGTTGAGTATGAGAACTGTAAGgtgagacatttgtctgttttccctgcgaattattattttttaacatcctgtgtatttactta-tagctttatatggtatgttatgcag

upper sequence: AT5G56500.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattattattgtttatacagtta--aatcttaata-gctgataaaaaaccgcagtattttttgactatatgtctct----tcttgcttttgtag
||| || ||||||||||||||||||||||| |||||||||||||| ||||||||||||||||| ||||||||||||   |  ||||  |||||||||||||| |   | |   ||||| | |||  |    ||||| | |  |     |     ||  ||| || || | |  ||      | ||| |  |||||
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcatttctcttata-atttaggagagctaatatggtacttctgcaagttggttctttctggctttctaactgacaaattttgttcatgtag

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|164040223|gb|ES120660.1|ES120660
EST:     GAGAACTGCAAG                         TTGTTTCTTGTTGACAAAAAGATAACAAATGCTAGAGATATTATTAGCATT
genomic: GAGAACTGCAAGgtattattat ... gcttttgtagTTGTTTCTTGTTGACAAAAAGATAACAAATGCTAGAGATATTATTAGCATT