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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatacttgatgcagtgttaacgtgaaaaccttctaattgctaaaaacactggttcatatttgtgagtgtgacattgtcccatgaatttttggatagTATGATTTAGAGTTGGTATTTGTGAAGAACTCCCACGAGTTTGTCCATGAGTATATGAAAAAGCCAGAGTTTGTCGAACTCATGAGAAGGCTTGGTGCTT

Basic information

species Arabidopsis thaliana
transcript AT3G20650.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20650.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G22390.1 (Glycine max), 3'ss of exon 10
gtaaatacttgatgcagtgttaacgtgaaaaccttctaattgctaaaaacactggttcatatttgtgagtgtgacattgtccca--tgaatttttgg---atagTATGATTTAGAGTTGGTATTTGTGAAGAACTCCCACGAGTTTGTCCATGAGTATATGAAAAAGCCAGAGTTTGTCGAACTCATGAGAAGGCTTGGTGCTT
         ||   || ||||   |  | ||    | |||| |||      || |   | || | ||| ||  |   |  | ||  | || || | |   | ||||||| || ||| | || |||| ||||||||| ||||| ||||| || |||||||||||||| ||||| ||||| || |||||| |||| || ||||| |
------gtatgtatcactgtttttgaaacaatgc-caaatttctagcttttctaggataaatatttgattgcaaggattactcatttaaacttatcgtttacagTATGACTTTGAGCTTGTTTTTGCGAAGAACTCGCACGAATTTGTACACGAGTATATGAAAAAACCAGAATTTGTGGAGCTCATGCGAAGACTCGGTGCAT

upper sequence: AT3G20650.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 10
------gtaaatacttgatgcagtgttaacgtgaaaaccttctaattgctaaaaacactggttcata--tttgtgagtgtgacattgtcccatgaatttttgg---atagTATGATTTAGAGTTGGTATTTGTGAAGAACTCCCACGAGTTTGTCCATGAGTATATGAAAAAGCCAGAGTTTGTCGAACTCATGAGAAGGCTTGGTGCTT
       | | |  ||||  |  ||| ||  |  | |  ||||||  |||   | ||    |||| |   ||||   | |    |  |    | || || | |   | || |||| || ||| | || || |  |||||||| || || ||||| ||||||||||||||||| || || ||||| || |||||| |||| |||||||| |
gtatgcatcactgtttgaaacgctgtgaaattctagattttctaag-gctggtatcag-atttcaaaggcttgtacttctagactactaatttaaacttgttgtttacagAATGACTTTGAGCTTGTTTTCGCAAAGAACTCACATGAATTTGTGCATGAGTATATGAAAAAACCGGAATTTGTGGAGCTCATGCGAAGACTTGGTGCAT
















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|86084647|gb|DR380406.1|DR380406
EST:     GTCCTGAATGGATTGTGCCCTTTAACGTCTTCAAGTCTTTAGCGGAGGAG                         TATGATTTAGAGTTGGTATTTGTGAAGAACTCCCACGAGTTTGTCCATGAG
genomic: GTCCTGAATGGATTGTGCCCTTTAACGTCTTCAAGTCTTTAGCGGAGGAGgtaaatactt ... ttttggatagTATGATTTAGAGTTGGTATTTGTGAAGAACTCCCACGAGTTTGTCCATGAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaacactggttcatatttgtgagtgtgacattgtcccatgaatttttggatagTATGATTTAGAGTTGGTATTTGTGAAGAACTCCCACGAGTTTGTCCATGAGTATATGAAAAAGCCAGAGTTTGTCGAACTCATGAGAAGGCTTGGTGCTT
 tgctaaa  putative branch site (score: 2)
                                            ttttt  putative PPT
                                       atgaattttt  TA-rich tract