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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattctgcttttcccttcacttcttcctttcgtttctctgtgactattttcgttgaaattgagaaatttccaaatttgtacttttcattgatgtgtagaattgaaggaaccctaattttggttttgggaaaaaacttgtcttgtttttggttaattagGACTCGAATAATCTGAAAGATGCTCTCAAGTATTCGGCTCAGATGCTAAGCGAGTTACGGACTTCGAAGCTATCACCTCACAAGTACTATGATCTAT

Basic information

species Arabidopsis thaliana
transcript AT2G17790.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G17790.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA11G08390.1 (Glycine max), 3'ss of exon 1
gtaaattctgcttttcccttcacttcttcctttcgtttctctgtgactattttcgttgaaattgagaaatttccaaatttgtacttttcattgatgtgtagaattgaaggaaccctaattttggttttgggaaaaaacttgtcttgtttttggttaattagGACTCGAATAATCTGAAAGATGCTCTCAAGTATTCGGCTCAGATGCTAAGCGAGTTACGGACTTCGAAGCTATCACCTCACAAGTACTATGATCTAT
|||| | || ||        | ||     || || |   ||| |  |     ||   ||       || ||| || ||| |  | || ||           ||||        |||||||   | || ||    ||  | |  | ||            |||||||||| ||||| |  |||||| | ||||||||||||||||||||   |||| |  ||||||| ||||| || |||||||||||||| || ||||
gtaactcctcctccgttaaaccctaacctctctcttccttctattccacgcatccacgatcacactaatttttcagattcg--ccttcca-----------aatt--------cctaatt---gattcggatccaatttcgattcgtcgc---------agGACTCGAACAATCTCAGGGATGCTTTGAAGTATTCGGCTCAGATGCTCTCCGAGCTCAGGACTTCCAAGCTTTCTCCTCACAAGTACTACGAACTAT

upper sequence: AT2G17790.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA01G36870.1 (Glycine max), 3'ss of exon 1
gtaaattctgcttttcccttcacttcttcctttcgtttctctgtgactattttcgttgaaattgagaaatttccaaatttgtacttttcattgatgtgtagaattgaaggaaccctaattttggttttgggaaaaaacttgtcttgtttttggttaattagGACTCGAATAATCTGAAAGATGCTCTCAAGTATTCGGCTCAGATGCTAAGCGAGTTACGGACTTCGAAGCTATCACCTCACAAGTACTATGATCTAT
|||| | || | ||   |   | | ||  || || |   ||| |   | | |||   | |     ||    || || |||  |      |||    |    ||||        |||||||   | || ||    ||  | |  | ||            |||||||||| ||||| |  || ||| | ||||||||||||||||||||   |||| |  ||||||| ||||| || |||||||||||||| || ||||
gtaactcctccgttaaaccctaat-ctctctctcttccttctatt-ttctattccccgcagccacgatcactctaacttttcag-----attcgccttccaaatt--------cctaatt---gattcggatccaatttcgattcgtcgc---------agGACTCGAACAATCTCAGGGACGCTTTGAAGTATTCGGCTCAGATGCTCTCCGAGCTCAGGACTTCCAAGCTTTCGCCTCACAAGTACTACGAACTAT
















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|125276328|gb|EL290413.1|EL290413
EST:     CTTTCAAGCAAAACGCATTTTACATGCAACGCGCTATT                         GACTCGAATAATCTGAAAGATGCTCTCAAGTATTCGGCTCAGATGCTAAGC
genomic: CTTTCAAGCAAAACGCATTTTACATGCAACGCGCTATTgtaaattctg ... ggttaattagGACTCGAATAATCTGAAAGATGCTCTCAAGTATTCGGCTCAGATGCTAAGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggaaccctaattttggttttgggaaaaaacttgtcttgtttttggttaattagGACTCGAATAATCTGAAAGATGCTCTCAAGTATTCGGCTCAGATGCTAAGCGAGTTACGGACTTCGAAGCTATCACCTCACAAGTACTATGATCTAT
      ccctaat  putative branch site (score: 3)
                                        tttttggttaatta  TA-rich tract