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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagtatcttcttaattaatcaaacttacttaatactcattaaccaaaacaatgcattaatactcattcttgtgattttttcagATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCATGTCCCGCTTCTCCAATTTTCTACAAATACAACCCCGTTAAG

Basic information

species Arabidopsis thaliana
transcript AT2G28760.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G06980.2 (Glycine max), 3'ss of exon 3
---------------gta-tagtatcttcttaattaatcaaacttacttaatactcattaaccaaaacaatgcattaatactcattcttgtgattttttcagATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCATGTCCCGCTTCTCCAATTTTCTACAAATACAACCCCGTTAAG
                |  ||  || | | || ||  ||    ||  |  || |    |||   ||  ||       |||||  |  ||      |   ||||||| || || |   | ||  | ||||||||||||||||| ||| | ||||| || ||||||||||||||||||||||||||||| || |||
aacatgacatgaatgatgctatcatgtgcatagtttttctgtgtttttagatgcgttgtaatttaattaaaatgcatatacttttattttc--cctgaacagATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAG

upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 4
----------------gtatagtatcttcttaattaatcaaacttacttaatactcattaaccaaaacaatgcattaatactcattcttgtgattttttcagATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCATGTCCCGCTTCTCCAATTTTCTACAAATACAACCCCGTTAAG
                 | ||  |  | |  | ||  ||    ||  |  ||     ||||   ||  ||        ||||  |  ||      |   ||||||| || || |   | ||  | ||||||||||||||||| ||| | ||||| || ||||||||||| ||||||||||||||||| || |||
aacataacatgaatgattctatcaggtgcagagtttctctgcgtttttagatgtgttttaatttaattaaaatgcatgtacttttcttttc--cctgaacagATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCTGCTTCTCCAATCTTCTACAAATACAACCCTGTAAAG

upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 5
---gtatagtatcttcttaat------taatcaaacttacttaatactcattaaccaaaacaatg-cattaatactcattct---tgtgattttttc--agATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCATGTCCCGCTTCTCCAATTTTCTACAAATACAACCCCGTTAAG
    | || | | | | |||       |  ||||  | |||| | |    ||    ||| |||||    | || |||||| |   | ||||   ||   |||||| || || ||| | ||  ||||||||||||| ||||||||| | ||||| || || ||||| ||||||||||||||||| || || |||
atattgtattgtgtacataacatactatgttcaacatcactttaaatctgtttgt-aaaccaatgatgctgattctcattatcactttgatccctttgtagATGTCACGGAGCCTTTATTGATCGAGGTTGATCAGATCTACCATCTTGCATGCCCTGCCTCTCCTATTTTCTACAAATACAATCCAGTAAAG

upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 5
------------gtatagtatcttcttaattaatcaaacttacttaatactcattaaccaaaacaatgcattaatactcattcttgtgatt--ttttcagATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCATGTCCCGCTTCTCCAATTTTCTACAAATACAACCCCGTTAAG
             | || | | | | ||||  |  |  || |  |     | |           ||  || | || || |||||  | ||   |||| |||||| || || ||| | ||  ||||||||||||| ||||||||| | ||||| || || ||||| ||||||||||||||||| || || |||
gtaatgatgatgctgtattgtgtacataatgtactatgctcagcttcactttaaatctgtttgtaaaccaatgatgctgattctcattatcactttttagATGTCACGGAGCCTTTATTGATCGAGGTTGATCAGATCTACCATCTTGCATGCCCTGCCTCTCCTATTTTCTACAAATACAATCCAGTAAAG

upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G15020.1 (Glycine max), 3'ss of exon 4
---------gtatagtatcttcttaattaa--tcaaacttacttaatactcattaaccaaaacaatgcattaatac-tcattcttgtgattttttc--agATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCATGTCCCGCTTCTCCAATTTTCTACAAATACAACCCCGTTAAG
          ||  |||| |  |  || |   ||| | |  ||| | |    | ||    ||  || |    | || | ||  || ||||   ||   |||||| ||||||||| |     | ||||||||||| ||||||||| | ||||| ||||| ||||| |||||||||||||| || || || |||
agtgataccttagtgtatatagtatatcatgttcagaatgtctttaaatgtctaaaagttaatgatacggatacacattatcattatgatccctttgtagATGTCACTGAACCTTTGACGATTGAGGTTGATCAGATCTACCATCTTGCATGCCCCGCATCTCCTATTTTCTACAAATATAATCCTGTGAAG

upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 4
----------------gtatagtatcttcttaattaatcaaacttacttaatactcattaaccaaaacaatgcattaatactcattcttgtgattttttc--agATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCATGTCCCGCTTCTCCAATTTTCTACAAATACAACCCCGTTAAG
                 |||||||| | | |  | |   ||  ||  | ||||      ||   |    |   ||  | | | ||  |  ||||   ||   |||||| ||||||||| |     | ||||||||||| ||||||||| | || || || || ||||| |||||||||||||| || ||||| |||
agttataccttagtgtatatagtatat-cgtgttcag--aaggtttttaaatatctgaaaattgatgatactgatacacatt-atcatcatgatccctttgtagATGTCACTGAACCTTTGACGATTGAGGTTGATCAGATCTACCATCTTGCGTGCCCTGCATCTCCTATTTTCTACAAATATAATCCCGTGAAG

upper sequence: AT2G28760.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: EFJ17446 (Selaginella moellendorffii), 3'ss of exon 3
gtatagtatcttcttaattaatcaaacttacttaatactcattaaccaaaacaatgcattaatactcattcttgtgattttttcagATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCATGTCCCGCTTCTCCAATTTTCTACAAATACAACCCCGTTAAG
                                   || |  |   |  ||    ||||   ||  |||| ||  |   | ||||||| || || || ||| |  | || || ||||| || || |||||| | ||||||||||||||||| || |||||||| ||||| ||||| || 
----------------------------------gta-tggtgcgcacaagtgttgcaactatgatcatgctgctccctgtttcagACGTCACGGAGCCTTTGCTTGTGGAAGTTGACCAGATTTACCATCTGGCATGTCCCGCTTCTCCCATCTTCTACAAGTACAATCCCGTGAAA

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|86061220|gb|DR356977.1|DR356977
EST:     CAATCTCAAGAAATGGATTGGTCATCCAAGATTTGAGCTAATTCGTCATG                         ATGTGGCTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCAT
genomic: CAATCTCAAGAAATGGATTGGTCATCCAAGATTTGAGCTAATTCGTCATGgtatagtatc ... attttttcagATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCAT
EST: gi|86061221|gb|DR356978.1|DR356978
EST:     CAATCTCAAGAAATGGATTGGTCATCCAAGATTTGAGCTAATTCGTCATG                         ATGTGGCTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCAT
genomic: CAATCTCAAGAAATGGATTGGTCATCCAAGATTTGAGCTAATTCGTCATGgtatagtatc ... attttttcagATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCAT
EST: gi|152038570|gb|AV831033.2|AV831033
EST:     CAATCTCAAGAAATGGATTGGTCATCCAAGATTTGAGCTAATTCGTCATG                         ATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCAT
genomic: CAATCTCAAGAAATGGATTGGTCATCCAAGATTTGAGCTAATTCGTCATGgtatagtatc ... attttttcagATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCAT
EST: gi|86061222|gb|DR356979.1|DR356979
EST:     CAATCTCAAGAAATGGATTGGTCATCCAAGATTTGAGCTAATTCGTCATG                         ATGTGGCTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCAT
genomic: CAATCTCAAGAAATGGATTGGTCATCCAAGATTTGAGCTAATTCGTCATGgtatagtatc ... attttttcagATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatactcattaaccaaaacaatgcattaatactcattcttgtgattttttcagATGTGACTGAACCTCTTTTCGTCGAGGTTGATCAAATCTACCATTTAGCATGTCCCGCTTCTCCAATTTTCTACAAATACAACCCCGTTAAG
                                              ttttttc  CT-rich tract
                          attaatact  TA-rich tract