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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtcatcattgcttttctaagcaaaatttctgttcgtgaatctaaatactaaaaccttttttgtgctttcactctcagGCACGCTGTGCAGCTTCTGTCTCCTGCCAGCATTGTAGCGAAAATGAATGGCCGTGACAATATTTGCAAG

Basic information

species Arabidopsis thaliana
transcript AT5G22330.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G22330.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G21830.1 (Glycine max), 3'ss of exon 10
gtactgtcatcattgcttttctaagcaaaatttctgttcgtgaatctaaatactaaaaccttttttgtgctttcactctcagGCACGCTGTGCAGCTTCTGTCTCCTGCCAGCATTGTAGCGAAAATGAATGGCCGTGACAATATTTGCAAG
    |   ||  ||| ||  ||   |  |   | |  |      | |   |||| | || | ||   |          ||||||| || || || ||  | || |||||||||||||| || |||||||||||||| ||||| || ||||||
--gtttggattcttgattggctgttcctatgcttttctttc---ttttgttacttacacttgttgcata---------tcagGCATGCAGTTCAACTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG

upper sequence: AT5G22330.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA07G02170.1 (Glycine max), 3'ss of exon 10
gtactgtcatcattgcttttctaagcaaaatttctgttcgtgaatctaaatactaaaaccttttttgtgctttcactctcagGCACGCTGTGCAGCTTCTGTCTCCTGCCAGCATTGTAGCGAAAATGAATGGCCGTGACAATATTTGCAAG
            ||    ||||        | | |     ||  | |   | || |      ||      |||   | ||||||| || || |||||  | || |||||||||||||| || |||||||||||||| ||||| || ||||||
-----------gtttggattcttgattggctgttttcctatgcttttcttt-cttatgttacttacactttttgcttatcagGCATGCAGTTCAGCTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG
















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|124920296|gb|EH994025.1|EH994025
EST:     GAAGAATGCTTGGTTCTACTTGGGGAGATTGGGCAAAGAACTTCACTAAG                         GCACGCTGTGCAGCTTCTGTCTCCTGCCAGC
genomic: GAAGAATGCTTGGTTCTACTTGGGGAGATTGGGCAAAGAACTTCACTAAGgtactgtcat ... tcactctcagGCACGCTGTGCAGCTTCTGTCTCCTGCCAGC
EST: gi|116443984|gb|EG486576.1|EG486576
EST:     GAAGAATGCTTGGTTCTACTTGGGGAGATTGGGCAAAGAACTTCACTAAG                         GCACGCTGTGCAGCTTCTGTCTCCTGCCAGCATTGTAGCGAAAATGAATGG
genomic: GAAGAATGCTTGGTTCTACTTGGGGAGATTGGGCAAAGAACTTCACTAAGgtactgtcat ... tcactctcagGCACGCTGTGCAGCTTCTGTCTCCTGCCAGCATTGTAGCGAAAATGAATGG
EST: gi|164058599|gb|ES153110.1|ES153110
EST:     GAAGAATGCTTGGTTCTACTTGGGGAGATTGGGCAAAGAACTTCACTAAG                         GCACGCTGTGCAGCTTCTGTC
genomic: GAAGAATGCTTGGTTCTACTTGGGGAGATTGGGCAAAGAACTTCACTAAGgtactgtcat ... tcactctcagGCACGCTGTGCAGCTTCTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatttctgttcgtgaatctaaatactaaaaccttttttgtgctttcactctcagGCACGCTGTGCAGCTTCTGTCTCCTGCCAGCATTGTAGCGAAAATGAATGGCCGTGACAATATTTGCAAG
                       tactaaa  putative branch site (score: 1)
                               ccttttttgtgctttc  CT-rich tract
               aatctaaatactaaaa  TA-rich tract