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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattaataatcaatgttcattttctttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcagCAATATATATTATATTAATGACAAATTGGACAAGAGGACATGGACATACATATTTGGGGCGTGCTGTGCAACAACTGTTTTTATTCCTTCCTTCCACAAT

Basic information

species Arabidopsis thaliana
transcript AT1G77690.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G77690.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA06G11540.1 (Glycine max), 3'ss of exon 4
gtaaattaataatcaatgttcattttctttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcagCAATATATATTATATTAATGACAAATTGGACAAGAGGACATGGACATACATATTTGGGGCGTGCTGTGCAACAACTGTTTTTATTCCTTCCTTCCACAAT
||||   | || |  ||  | |||||||| ||       ||   | |||    || || ||  ||| || ||     || ||| || ||||| || || || |||||  |||||||||| || ||||| ||||| |||||||| |||||||||||||| || || || ||||| |||||||| 
gtaagacagtagtagatcatgattttcttaat------attgcattataaactaagtttatatatacaacaatattgtttcagTAACATATACTACATAAACGACAATCTGGACAAGAGAACTTGGACTTACATCTTTGGGGCATGCTGTGCAACAACGGTCTTCATCCCTTCTTTCCACAAC

upper sequence: AT1G77690.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA04G43150.2 (Glycine max), 3'ss of exon 4
gtaaattaataatcaatgttcattt---tctttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcagCAATATATATTATATTAATGACAAATTGGACAAGAGGACATGGACATACATATTTGGGGCGTGCTGTGCAACAACTGTTTTTATTCCTTCCTTCCACAAT
||||   | ||    ||| |  |||   | ||   |||||  | | |  || || |  || || | | |    | ||  ||| ||| || ||||| || || ||||||||  ||||||| || || ||||| ||||| ||||| || |||||||||||||| || || || ||||| |||||||||
gtaagacagtagatcatgcttttttgaatattatatatataatctgtatat-ttcatcataaactgagaatttatattgttt-cagTAACATATACTACATAAATGACAATCTGGACAAAAGAACTTGGACTTACATCTTTGGCGCATGCTGTGCAACAACAGTCTTCATCCCTTCTTTCCACAAT
















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|116477708|gb|EG520300.1|EG520300
EST:     TGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAG                         CAATATATATTATATTAATGACAAATTGGACAAGAGGACATGGACATACAT
genomic: TGCACTTTTCTTCTCTTTGGATCTGTTATTCAGCTCATTGCTTGTGCTAGgtaaattaat ... tgatttgcagCAATATATATTATATTAATGACAAATTGGACAAGAGGACATGGACATACAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattatatggttttttcatattgaaaattaattaatataaaaaatgatttgcagCAATATATATTATATTAATGACAAATTGGACAAGAGGACATGGACATACATATTTGGGGCGTGCTGTGCAACAACTGTTTTTATTCCTTCCTTCCACAAT
                              aattaat  putative branch site (score: 3)
           ttttttcatattgaaa  TA-rich tract