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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtccttttctatttcaatcaggatatgcttccgaagttgtcattttaagcttgtattgtaaatcattatatgtatcggttaactcaacaatcttctgcacttgtcagTGTCGGCGCAGCTTTACTCCCCAAGACGACCAGCTGTTGACGTAGCTGAAGTCTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTG

Basic information

species Arabidopsis thaliana
transcript AT1G63690.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G63690.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA01G42940.1 (Glycine max), 3'ss of exon 4
------------------------------------------------gtatgtccttttctatttcaatcaggatatgcttccgaagttgtcattt-----taagcttgtattgtaa----atcattatatgtatcggttaactc----aacaatcttctg-----------cacttgtcagTGTCGGCGCAGCTTTACTCCCCAAGACGACCAGCTGTTGACGTAGCTGAAGTCTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTG
                                                 |    |    |   |     ||   |||| |||      || | | ||      |   |   |||| ||    |  | ||| ||| |    |||          | | ||||            |  ||  ||||||| | |||||| ||||| |||   |||||||||||||||||||| ||||| ||| | ||| | |||||| ||  |||||| || |||||||| |||||
gtgagcttccttgtgcatgttttgtggacttgtagtagtttctatttgatgcagctaacttagtgatggtcgcaatat-ctttaatgcttatgacttatcagcagattctaattgcaatgtaactactatttgtttttcctaaaggggagggaagttttctaaaaaaaaaatccgttttgcagTGTCTGTGCAGCTGTACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAGTATTTCTTTGGATGATGGCAGTTCTTACCATATTGTGTGCATCATATTG

upper sequence: AT1G63690.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G20390.1 (Glycine max), 3'ss of exon 3
------------------------------------------------gtatgtccttttctatttcaatcaggatatgcttccgaagttgtcattt-----taagcttgtattgtaa----atcattatatgtatcggttaa--------------ctcaacaatcttctgcacttgtcagTGTCGGCGCAGCTTTACTCCCCAAGACGACCAGCTGTTGACGTAGCTGAAGTCTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTG
                                                 |    |    |   |     ||   |||| |||      || | | ||      |   |   |||| ||    |  | ||| ||| |    |||               || | ||     | |  ||  ||||||| | ||| ||  |||| |||   |||||||||||||||||||| ||||| ||| | ||| | |||||| ||  |||||| || |||||||| |||||
gtgagcttccttgtgcatgttttgtggacttgtagtagtttctatttgatgcaactaacttagtgatggtcgcaatat-ctttaatgcttatgacttatcaacagattctaattgcaatgtaactactatttgtttttcctaaaggggagggaagctttctaaaaaaaaatccgttttgcagTGTCTGTGCAACTACACTCGCCACTTCGACCAGCTGTTGACGTAGCAGAAGTATTTCTTTGGATGATGGCAGTTCTTACCATATTGTGTGCATCATATTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtattgtaaatcattatatgtatcggttaactcaacaatcttctgcacttgtcagTGTCGGCGCAGCTTTACTCCCCAAGACGACCAGCTGTTGACGTAGCTGAAGTCTTTTTGTGGTTAATGGCAATTGGTACCATTTTATGTGCATCTTATTG
                        ggttaac  putative branch site (score: 3)
                                      tcttctgc  putative PPT
      taaatcattatatgta  TA-rich tract