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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatacatttcacaactctcatatttgagattatctgtttttattcttttttgttgaaagcactctctttaattattgtctttcagGCAAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAAGTGTACAAGACATCTGTTCTGGTTTTCAA

Basic information

species Arabidopsis thaliana
transcript AT5G37350.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G37350.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G46440.1 (Glycine max), 3'ss of exon 3
----------------------------------------gtatgatacatttcacaactctcatatttgagattatctgtttttattcttttttgttgaaagcactctctttaattattgtctttcagGCAAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAAGTGTACAAGACATCTGTTCTGGTTTTCAA
                                         ||||||  ||  ||    |   ||  | ||   ||| || | | |          ||       ||  || |  || || |||  |||||||||||||||||||| || |||||||| |||   ||||||||||| ||||| ||||| ||||||||| |||| |||||
gtatgtgatccacctgaagcttttgtttacctgtttgtttttatgatg-atgacatggtttggatcatcgactatatgtgatatcaagacaccacatttctgtttcttactgtg-ttgttttctaacagGCAAATGTTTATCATGCAACTAAATCTGATGGTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTTTGGTATTCAA

upper sequence: AT5G37350.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 3
----------------------------------------gtatgatacatttcacaactctcatatttgagattatctgtttttattcttttttgttgaaagcactctctttaattattgtctttcagGCAAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAAGTGTACAAGACATCTGTTCTGGTTTTCAA
                                         ||||||  ||  ||    |   ||  | ||   ||| || | | |          ||       ||  ||||  || || |||  |||||||||||||||||||| || ||||||||   |   ||||||||||| ||||| ||||| |||||||||||||| || ||
gtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatg-atgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttg-ttgttttctaacagGCAAATGTTTATCATGCAACTAAATCTGATACTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTCTGGTATTTAA

upper sequence: AT5G37350.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------------------------------gtatgatacatttcacaactctcatatttgagat-----tatctgtttttattcttttttgttga---aagcactctcttta--------attattgtcttt--------cagGCAAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAAGTGTACAAGACATCTGTTCTGGTTTTCAA
                                                  |  |    |||    ||| | | || |||  ||       || ||| | | |||| |  || | |    | || | |||||         ||||||||  ||        ||||||||||||||||||||||||||||| || |||   ||||||||||| ||||||||||| || |||||||| || || ||
gtacgtggatccttacatccttcaatttattatctattatgatagctatagcctacagcatgcttcaattttgatgtttatgaagtctgcatttgtgtattttctgtcctgatcatgtgatcattttctttgttttcattattattgttattttttttaacagGCAAATGTTTATCATGCCACAAAATCCGATGGTCACGAACTTGCAATTAAAGTGTACAAAACTTCTGTTCTAGTATTTAA

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|124826647|gb|EH911513.1|EH911513
EST:     TGGCTGTATCTCGACAGGCAAAGAA                         GCAAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAA
genomic: TGGCTGTATCTCGACAGGCAAAGAAgtatgataca ... tgtctttcagGCAAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatctgtttttattcttttttgttgaaagcactctctttaattattgtctttcagGCAAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAAGTGTACAAGACATCTGTTCTGGTTTTCAA
                                   ctttaat  putative branch site (score: 4)
                                            ttgtctttc  putative PPT
      tttttattcttttttg  TA-rich tract