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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTTAAGCTACCAAGCCGTTACCTTGTTTCTCCCCCGGAGATTGATAGAACATCTGGTGAATATTTGACTCACAATGGCGTCAGTACTTTTGCTTGCAGgtatttcaacttctgtccttttctcactttgagtaatggttatatgctttgtttagtatagttccagttgcttgctcattataggtctatactatgctttgcatttttgccaatagtgtatcacgcttgaactgatcatatatattaatgtatgtgactgaaacag

Basic information

species Arabidopsis thaliana
transcript AT1G09780.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09780.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM5G833389_T02 (Zea mays), 5'ss of exon 6
AGCTTAAGCTACCAAGCCGTTACCTTGTTTCTCCCCCGGAGATTGATAGAACATCTGGTGAATATTTGACTCACAATGGCGTCAGTACTTTTGCTTGCAGgtatttcaacttctgtccttttctca---ctttgagtaatggttatatgctttgtttagtatagttccagttgcttgctcattataggtctatactatgctttgcatttttgccaatagtgtatcacgcttgaactgatcatatatattaatgtatgtgactgaaacag
|| | ||||| |||||||||||||||||||| || || ||||| |||||||||||||| || || |||    | |||||| || | || ||||||||||||     ||| | || ||  |||||||    ||    | ||  || | |  ||  || | ||| ||   | |  |||  |  || |  ||| || ||| | |  ||||                                                              
AGTTGAAGCTTCCAAGCCGTTACCTTGTTTCCCCACCAGAGATAGATAGAACATCTGGGGAGTACTTGGTGAAGAATGGCATCCGCACCTTTGCTTGCAGg-----caagtactatctatttctcagcctttctcttgatacttttttatttacttcaatatcgtaa-aatcacttagtttttctgagtc-at-ctaag-tcagcatgc------------------------------------------------------------

upper sequence: AT1G09780.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G003385_T02 (Zea mays), 5'ss of exon 6
AGCTTAAGCTACCAAGCCGTTACCTTGTTTCTCCCCCGGAGATTGATAGAACATCTGGTGAATATTTGACTCACAATGGCGTCAGTACTTTTGCTTGCAGgtatttcaacttctgtccttttctcactttgagtaatggttatatgctttgtttagtatagttccagttgcttgctcattataggtctatactatgc-tttgcatttttgccaatagtgtatcacgcttgaactgatcatatatattaatgtatgtgactgaaacag
|| | ||||| ||||| || ||||||||||| || || ||||| |||||||||||||| || || |||    | |||||| || | || |||||||||||| |  | |   | |||| ||    |  | |    |    || | ||||   || | ||| ||   | |  ||||     | || |||   |   | | ||||                                                                 
AGTTGAAGCTTCCAAGTCGCTACCTTGTTTCCCCACCAGAGATAGATAGAACATCTGGGGAGTACTTGGTGAAGAATGGCATCCGCACCTTTGCTTGCAGgcaagt-actatatgtctttcagcccttctcttgataccttttttgctcacttcaatatcgta--aatctcttgagtcatctaagtcagcatcgttcatttgt----------------------------------------------------------------

upper sequence: AT1G09780.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G40690.1 (Glycine max), 5'ss of exon 5
AGCTTAAGCTACCAAGCCGTTACCTTGTTTCTCCCCCGGAGATTGATAGAACATCTGGTGAATATTTGACTCACAATGGCGTCAGTACTTTTGCTTGCAGgtatttcaacttctgtccttttctcactttgagtaatggttatatgctttgtttagtatagttccagttgcttgctcattataggtctatactatgctttgcatttttgccaatagtgtatcacgcttgaactgatcatatatattaatgtatgtgactgaaacag
|  | || || ||||| | ||||||||||||||| || |||||||| || || ||||||||||||||     | |||||  |  | ||||||||||||||||| ||   ||| | ||  |     | ||| |    | ||   ||  ||  | || | || ||     ||   |  ||| |||  ||||  ||     ||   ||||||                                                         
AATTGAAACTTCCAAGTCATTACCTTGTTTCTCCACCAGAGATTGACAGGACTTCTGGTGAATATTTAGTGTATAATGGTATTCGGACTTTTGCTTGCAGgtagtt-gtcttttatcact-----attttaatcgttagtaggatttttattatactgtaattta---tggaagaccataatacttctac-ctgcttattctgtttttgt--------------------------------------------------------

upper sequence: AT1G09780.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv08s0056g00200.t01 (Vitis vinifera), 5'ss of exon 5
AGCTTAAGCTACCAAGCCGTTACCTTGTTTCTCCCCCGGAGATTGATAGAACATCTGGTGAATATTTGACTCACAATGGCGTCAGTACTTTTGCTTGCAGgtatttcaacttctgtccttttctcactttgagtaatggttatatgctttgtttagtata-gttccagttgcttgctcattataggtctatactatgctttgcatttttgccaatagtgtatcacgcttgaactgatcatatatattaatgtatgtgactgaaacag
|| | ||||| || |  | ||||||||||||||| || ||||| || ||||||||||||||||||||    |||||||| ||  |||||||||||||||||||      |   |      || |   | | |  ||    || |     |  ||| |||  |||  ||||   |  |  || |   ||   |  || | ||                                                                  
AGTTGAAGCTTCCCAATCATTACCTTGTTTCTCCTCCAGAGATAGAGAGAACATCTGGTGAATATTTAGTGCACAATGGTGTTCGTACTTTTGCTTGCAGgtaaggtggcagataatgaattgt-gttatcatcaagaactaaaattaattattattatttgttgaagttaactatttgttctttttcatcaacattcatt------------------------------------------------------------------

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|163966568|gb|ES085227.1|ES085227
EST:     AATGGCGTCAGTACTTTTGCTTGCAG                         TGAGACCGTCAAGTTTGGGCATGTCACCTTCTTCTGGAATGGAAACCGATC
genomic: AATGGCGTCAGTACTTTTGCTTGCAGgtatttcaac ... actgaaacagTGAGACCGTCAAGTTTGGGCATGTCACCTTCTTCTGGAATGGAAATCGATC