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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattattattacattactaggttgattttgttatcattaactgtaatcatgtttttgagttttttacatatctctcttttcatctgcagCACAACATTCATTTCCTCCAAGAGGTGATGCAGAACCGACAATCAGATCTTTTAGAATGGTGCATTATCTTTTTACTGGCCATTGAAAACGCAATAGGCA

Basic information

species Arabidopsis thaliana
transcript AT1G69380.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G69380.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA01G06630.1 (Glycine max), 3'ss of exon 6
--------gtattattattacattactaggttgattttgt---tatcattaactgtaatcatgtttttgagttttttacatatctctcttttcatctgcagCACAACATTCATTTCCTCCAAGAGGTGATGCAGAACCGACAATCAGATCTTTTAGAATGGTGCATTATCTTTTTACTGGCCATTGAAAACGCAATAGGCA
             ||  |||  ||| ||| |    || ||   |||| | || ||   |  |    || ||  || |    |||  | |  |  | |||||||||| |||||||| |||||||| ||  | |||||| |  |||||||| | || ||||||||||||||   | || || | |||||||| |   ||  | 
cattttcccctacatatttaacttagtagttgaggttggtcagtatcttcaaatgatgttgtccaattaaggcttattt-catcgatttggttgtttgcagCACAATATTCATTTTCTCCAAGAAGTTCTCCAGAACAGGAAATCAGATTTCTTGGAATGGTGCATTATTGGTCTATTGACTATTGAAAATGTTCTATCCT

upper sequence: AT1G69380.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA02G12560.1 (Glycine max), 3'ss of exon 6
-----gtattattattacattact--aggttgattttgttatcattaactgtaa-tcatgtttttgagtt----ttttacatatctctcttttcatctgcagCACAACATTCATTTCCTCCAAGAGGTGATGCAGAACCGACAATCAGATCTTTTAGAATGGTGCATTATCTTTTTACTGGCCATTGAAAACGCAATAGGCA
       ||  |||    | || |  |||||||  |||||  ||||| ||  || | ||||| |  | ||     ||     ||   | |  |  | |||||||||| ||||||||||| ||||| ||  | |||||| |  |||||||| | || ||||||||||||||   | || || | |||||||| |   ||  | 
cccctacatatttaacttagtagttgaggttgaggttgtt--cattatcttcaaatgatgttgtccaattaaggcttatttcattgatttggttgtttgcagCACAATATTCATTTCCTACAAGAAGTTCTCCAGAACAGGAAATCAGATTTCTTGGAATGGTGCATTATTGGTCTATTGACTATTGAAAATGTTCTATCCT
















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|86083596|gb|DR379355.1|DR379355
EST:     AGATCTCTCAGAGATTTGGGGATCTAGACTATAAGCTAAAGTTTATAGAG                         CACAACATTCATTTCCTCCAAGAGGTGATGCAGAACCGACAATCAGATCTT
genomic: AGATCTCTCAGAGATTTGGGGATCTAGACTATAAGCTAAAGTTTATAGAGgtattattat ... tcatctgcagCACAACATTCATTTCCTCCAAGAGGTGATGCAGAACCGACAATCAGATCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattaactgtaatcatgtttttgagttttttacatatctctcttttcatctgcagCACAACATTCATTTCCTCCAAGAGGTGATGCAGAACCGACAATCAGATCTTTTAGAATGGTGCATTATCTTTTTACTGGCCATTGAAAACGCAATAGGCA
 cattaac  putative branch site (score: 2)
                         ttttttacatatctct  putative PPT
                 tttttgagtttttta  TA-rich tract