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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaagttgcatcaaccacatcattgtttggattttctcttagttaacggttaagtgattatcttgactctctatatcagGAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTATCGAAACATTTTTCCGATATGGGCTTTGGGGGAGTACCGTTGTCAGGTAT

Basic information

species Arabidopsis thaliana
transcript AT2G07050.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G07050.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA01G00430.2 (Glycine max), 3'ss of exon 18
--------------------------------------------------------------------------------gtaacaagttgcatcaaccacatcattgtttggattttctcttagttaa--cggttaagtgattatcttgactctctatatcagGAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTATCGAAACATTTTTCCGATATGGGCTTTGGGGGAGTACCGTTGTCAGGTAT
                                                                                  |  || ||  ||| |  |  | || |||    | |||   |  ||||  || || | |  |  |  |   ||   |  |||||||||||||||||||||||| | ||| |||||||| ||||| ||||| ||  ||||||| || || || ||||| ||||| || ||||  |  || ||||
gtacgaagacacagaccatataatttactttgtttttatgcatccttaattttatttttactttattaatatattcgctttaaggaaattaaatccagaatgt-atagttgacttcttcaagtgtttaaatcgttttaatcgtgttactttatcatcacttcagGAAATAATGGGAGTCTTCAACAAGAATTGCATGATCACATACGCCGCATACAGAAACATATTCCCCATTTGGGCGTTGGGAGAATACCAATCCCAAGTAT

upper sequence: AT2G07050.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 18
-------------gtaacaagttgcatcaaccacatcattgtttggattttctcttagttaacggttaa--gtgat---tatcttgactctctatatcagGAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTATCGAAACATTTTTCCGATATGGGCTTTGGGGGAGTACCGTTGTCAGGTAT
             | |  || | |   ||      |   |    | ||  |||   | |  |  || |    || |   || ||||    |  ||  ||||| || ||||| ||||||||||||||||| ||||| || ||||| || ||  ||||||| || || || |||||| |||| || ||||| |||| |||  
tagggaaaagtctgaatgaaatggttccatttctgtggattcaggcatgctcttacactccaaagtcattcatgttctataacttgttctttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATACAGAAACATCTTCCCCATTTGGGCTCTGGGTGAATACCGATGTCGGGTTC
















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|116474686|gb|EG517278.1|EG517278
EST:     CAAGATACTTGATTAATGCTCAAATGGAGAATGGTGATTTTCCACAACAG                         GAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTAT
genomic: CAAGATACTTGATTAATGCTCAAATGGAGAATGGTGATTTTCCACAACAGgtaacaagtt ... tctatatcagGAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTAT
EST: gi|116474685|gb|EG517277.1|EG517277
EST:     CAAGATACTTGATTAATGCTCAAATGGAGAATGGTGATTTTCCACAACAG                         GAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTAT
genomic: CAAGATACTTGATTAATGCTCAAATGGAGAATGGTGATTTTCCACAACAGgtaacaagtt ... tctatatcagGAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTAT
EST: gi|164159909|gb|ES027685.1|ES027685
EST:     TTAATGCTCAAATGGAGAATGGTGA-TTTCCACAACAG                         GAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTAT
genomic: TTAATGCTCAAATGGAGAATGGTGATTTTCCACAACAGgtaacaagtt ... tctatatcagGAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTAT
EST: gi|116424254|gb|EG466846.1|EG466846
EST:     CAAGATACTTGATTAATGCTCAAATGGAGAATGGTGATTTTCCACAACAG                         GAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTAT
genomic: CAAGATACTTGATTAATGCTCAAATGGAGAATGGTGATTTTCCACAACAGgtaacaagtt ... tctatatcagGAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttggattttctcttagttaacggttaagtgattatcttgactctctatatcagGAAATAATGGGAGTCTTCAATAGGAACTGCATGATAACATATGCCGCGTATCGAAACATTTTTCCGATATGGGCTTTGGGGGAGTACCGTTGTCAGGTAT
                                    tcttgac  putative branch site (score: 3)
                                          ctctctat  CT-rich tract
              ttagttaa  TA-rich tract