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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaagaaaaagacaaacaaatgtagtaagattactcaagattcacagaaagggatatgtctgagccataattcttgggctgttttgcagGTGGGGCTTCCTCTCACGCGCGGGTTTGTGGGATAAAAGCCACTTGATGAGACAAATCGAAAA

Basic information

species Arabidopsis thaliana
transcript AT5G48960.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G48960.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA15G21240.1 (Glycine max), 3'ss of exon 13
-gtaaaaagaaaaagacaaacaaatgtagtaagattactcaagattcacaga---aagggatatgtctgagccata---attcttgggctgtttt--gcagGTGGGGCTTCCTCTCACGCGCGGGTTTGTGGGATAAAAGCCACTTGATGAGACAAATCGAAAA
 ||  |       | |  |||| || | || |  |  ||     ||||   |   |    | ||| ||  |  ||    || ||    |||  |     ||||||||||  || || || || ||||||||||||||||||||||||||| ||||||| || ||
tgttcatcatggcaaatcaacatatat-gttatttgtcttgcatttcagttatttataccacatgcctatggtattaacatgctgtatctgcatacattagGTGGGGCTATCTATCGCGTGCTGGTTTGTGGGATAAAAGCCACTTGATGCGACAAATTGAGAA

upper sequence: AT5G48960.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 14
------gtaaaaagaaaaagacaaacaaatgtagtaagattactcaagattcacagaaagggatatgtctgagccataattcttgggctgttttgca---gGTGGGGCTTCCTCTCACGCGCGGGTTTGTGGGATAAAAGCCACTTGATGAGACAAATCGAAAA
          |   | ||| |    ||    |  |    || ||      | |    | |  || | | ||     || ||  |   |   | ||||   ||||||| || || || || || ||  ||||||||||||||||||||||||||||||| || ||
aagacttcctactaacaaaaatttgcatgc-tgcttgtctttctttttggttattttacgacatgtatttgctatttacttggtttacacgtctgcattagGTGGGGTTTTCTATCTCGTGCTGGACTGTGGGATAAAAGCCACTTGATGAGACAAATTGAGAA

upper sequence: AT5G48960.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA17G04580.1 (Glycine max), 3'ss of exon 14
---------gtaaaaagaaaaagacaaacaaatgtagtaagattactcaagattcacagaaagggatatgtc-tgagccataattcttgggctgttttgcagGTGGGGCTTCCTCTCACGCGCGGGTTTGTGGGATAAAAGCCACTTGATGAGACAAATCGAAAA
          ||  || |||||     |      | ||     |  |      |   |  |   | | ||   | | |     ||    | |||  ||  |||||||| || || || || || ||  ||||||||||||||||||||||||||||||| || ||
ggactattcctactaacaaaaatttggatgctgcttgtcttgctttttggttattttatgacttgttttgctattaacttggtttacacgtctgcatt--agGTGGGGTTTTCTATCTCGTGCTGGGCTGTGGGATAAAAGCCACTTGATGAGACAAATTGAGAA

upper sequence: AT5G48960.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 14
--------gtaaaaagaaaaagacaaacaaatgtagtaagattactcaagattcacagaaagggatatgtctgagccataattcttgggctgttttgc---agGTGGGGCTTCCTCTCACGCGCGGGTTTGTGGGATAAAAGCCACTTGATGAGACAAATCGAAAA
         | |   |     |  |   |  |||   ||  |  || | | | |    | | | ||   |   |       |  |    |  | |      ||||||||||| || ||||| |||||| | ||||||||||| ||||||||||||||||| |||||
tttatgatttgaggtgtttgggttagttatgtgtgtgaatgt--cttatgttccctgcatatgaattcatg-aaattgacctgatgaaaccctctcatgttagGTGGGGCTTTCTTTCACGTGCGGGTCTTTGGGATAAAAGTCACTTGATGAGACAAATTGAAAA

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|163969400|gb|ES130026.1|ES130026
EST:     TGGCGAGCTCTTTAACAAAAG                         GTGGGGCTTCCTCTCACGCGCGGGTTTGTGGGATAAAAGCCACTTGATGAG
genomic: TGGCGAGCTCTTTAACAAAAGgtaaaaagaa ... tgttttgcagGTGGGGCTTCCTCTCACGCGCGGGTTTGTGGGATAAAAGCCACTTGATGAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaagattcacagaaagggatatgtctgagccataattcttgggctgttttgcagGTGGGGCTTCCTCTCACGCGCGGGTTTGTGGGATAAAAGCCACTTGATGAGACAAATCGAAAA
                                            ctgtttt  CT-rich tract
                                ataattctt  TA-rich tract