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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatataaatcttatttggtttcactttatttgtacatgctcatgttatatgttgcaaaatcgagatggtcttttacttggaatctaaaaccatcattgtgttgaaaaacctttgagagcatacatgaatgctttctaacatgtattattatatagGCTTGCTATGACTGGAGCAAAGGTGCAGAAAATCACAACCCGGCGACTGCAAAAAGCAGCATTTTCTTGCACCTGCCACAG

Basic information

species Arabidopsis thaliana
transcript AT1G80670.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G80670.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA02G13780.1 (Glycine max), 3'ss of exon 9
gtatgatataaatcttatttggtttcactttatttgtacatgctcatgttatatgttgcaaaatcgagatggtcttttacttggaatctaaaaccatcattgtgttgaaaaacctttgagagcatacatgaatgctttctaacatgtattattatatagGCTTGCTATGACTGGAGCAAAGGTGCAGAAAATCACAACCCGGCGACTGCAAAAAGCAGCATTTTCTTGCACCTGCCACAG
                                            | |   | |    | ||| |     || | ||||    | |   | |    | | ||    ||   ||   ||  |  |     ||||  |||  | |         || | |||| ||| ||||| |||||||||||||||||||||||||| || || || ||||| | |  ||| |  |||||| | ||||||
--------------------------------------------cttaaaaaaatacgtaaagttagcttgtttttttgtaggcatattgacgtgaccctttc--tgtttaattatttggttc-----tgaaaccttattcat--------ttctgtagGTTTGTTATGATTGGAGCAAAGGTGCAGAAAATCACAATCCAGCTACAGCAAAGAACTACATATATTTGCACTTACCACAG

upper sequence: AT1G80670.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA01G09290.1 (Glycine max), 3'ss of exon 9
gtatgatataaatcttatttggtttcactttatttgtacatgctcatgttatatgttgcaaaatcgagatggtcttttacttggaatctaaaaccatcattgtgttgaaaaacctttgagagcatacatgaatgctttctaacatgtattattatatagGCTTGCTATGACTGGAGCAAAGGTGCAGAAAATCACAACCCGGCGACTGCAAAAAGCAGCATTTTCTTGCACCTGCCACAG
                                        |||| |    ||||||    |||   || | || ||||          |  |  |||    |||      | |||||  |   |   ||       |   | | |||    || | |||| ||| ||||| |||||||||||||||||||||||||| || || || ||||| | |  ||| |  |||||| | ||||||
----------------------------------------tgcttaaaaaatatgt----aaagttagtttgttttttg---------tggacacattgacgtg------accctttctgtttaattatttggctctgaaaccttgttcatttctgtagGTTTGTTATGATTGGAGCAAAGGTGCAGAAAATCACAATCCAGCTACAGCAAAGAACTACATATATTTGCACTTACCACAG
















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|164075290|gb|ES042782.1|ES042782
EST:     TATGCATATGCG                         GCTTGCTATGACTGGAGCAAAGGTGCAGAAAATCACAACCCGGCGACTGCA
genomic: TATGCATATGCGgtatgatata ... tattatatagGCTTGCTATGACTGGAGCAAAGGTGCAGAAAATCACAACCCGGCGACTGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaaaaacctttgagagcatacatgaatgctttctaacatgtattattatatagGCTTGCTATGACTGGAGCAAAGGTGCAGAAAATCACAACCCGGCGACTGCAAAAAGCAGCATTTTCTTGCACCTGCCACAG
                                ttctaac  putative branch site (score: 1)
                               tttctaacatgtatta  TA-rich tract