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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattactctttctttctttctcatattatccctatactatttgcaccaattttttgtatttcaaatatatattattatctttgtgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATGCCTATGATTGACCAG

Basic information

species Arabidopsis thaliana
transcript AT1G01050.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G01050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA16G01960.1 (Glycine max), 3'ss of exon 3
-gtattactctttctttctttctcatattatcccta-tactatttg-------caccaattttttgtattt-caaatatatattattatctttgtg-tagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATGCCTATGATTGACCAG
                                  || ||  || ||       || |||  || |  |||   |||| ||    ||| |     || ||||| ||||| ||||| |||||||| ||||| ||||| ||||||||||| ||||||||||||||||||
nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngatagtataatctgataatatcaacaaggttatccattagtaaatttactgaattgttgacatgatagGAGCCTGTTCTTCCCGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG

upper sequence: AT1G01050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 5
-----gtattactctttctttctttctcatat-tatccctatactatttgcaccaatt---ttttgtattt-caaatatatattattatctttg-tgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATGCCTATGATTGACCAG
      | |||   |     |   | | ||   |||   |   |||| |  | |||     || |  |||   |||| ||  | |||||      ||||||| || || ||||| |||||||| ||||| ||||| ||||||||||| ||||||||||||||||||
ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG

upper sequence: AT1G01050.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA03G42280.1 (Glycine max), 3'ss of exon 5
gtattactctttctttctttctcatattatccctatactatttgcaccaattttttgtatttcaaatatatattattatctttgtgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATGCCTATGATTGACCAG
   | | ||     | |  | |  |||| |   |||   ||  ||   || | ||| | |   || | | |  |    | |||   ||||| ||||| ||||| || ||||||||||| ||| | ||||||||| | ||||| |||||||||  |
--gtaaatccagtgtacaatattctattttaattattgaataggcgataactatttatttaagaatttttttctgcattgttttgatagGAGCCTGTTCTTCCTGGATGTTTTCTGCGAGCCCGGGCCATTGGACTTATGCCCATGATTGACGGG

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|152033655|gb|BP561551.2|BP561551
EST:     GCACATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAG                         GAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
genomic: GCACATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAGgtattactct ... ctttgtgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
EST: gi|86084748|gb|DR380507.1|DR380507
EST:     GCACATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAG                         GAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
genomic: GCACATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAGgtattactct ... ctttgtgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
EST: gi|47828474|gb|CK118158.1|CK118158
EST:     GCACATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAG                         GAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
genomic: GCACATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAGgtattactct ... ctttgtgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
EST: gi|86078040|gb|DR373797.1|DR373797
EST:     GCACATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAG                         GAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
genomic: GCACATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAGgtattactct ... ctttgtgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
EST: gi|164137359|gb|ES036780.1|ES036780
EST:     GACCCCATTGATGTCTTAGTCATCATGCAG                         GAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
genomic: GACCCCATTGATGTCTTAGTCATCATGCAGgtattactct ... ctttgtgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
EST: gi|125092166|gb|EL149989.1|EL149989
EST:     TTGATGTCTTAGTCATCATGCAG                         GAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
genomic: TTGATGTCTTAGTCATCATGCAGgtattactct ... ctttgtgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATG
EST: gi|124711244|gb|EH802646.1|EH802646
EST:     CATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAG                         GAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCA
genomic: CATTGTGTGAAGACAATGACCCCATTGATGTCTTAGTCATCATGCAGgtattactct ... ctttgtgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atactatttgcaccaattttttgtatttcaaatatatattattatctttgtgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATGCCTATGATTGACCAG
                                         ttatcttt  CT-rich tract
              aattttttgtatttca  TA-rich tract