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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctttcaagtgtttttaattttctataaatatagtaaactgattatttttggtttgttttgtgctgtgattgtaacttgcaaagtgaagttgtgagtgcagATTTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAG

Basic information

species Glycine max
transcript GLYMA08G17810.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G17810.3 (Glycine max), 3'ss of exon 1
lower sequence: AT1G79210.1 (Arabidopsis thaliana), 3'ss of exon 1
ctttcaagtgtttttaattttctataaatatagtaaact--gattatttttggtttgttttgtgctgtgattgtaac--ttgcaaagtgaagttgtgagtgcagATTTCTTGCGC-GGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAG
        | |||| | ||   | | || || ||  |    ||  |  ||| | ||      | ||    ||  |    |  ||   |   |   |   ||||| ||  ||  |  |||||   |||||||| |||||||| ||||||||||||||||| || ||
----ggtttcttttcatttaagtttgaacattgttgatgaagaacagatttagcttccacgtttctaaatttccagagatgacactatttcgcattttttgcagCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAG

upper sequence: GLYMA08G17810.3 (Glycine max), 3'ss of exon 1
lower sequence: AT1G79210.3 (Arabidopsis thaliana), 3'ss of exon 1
---------------ctttcaagtgtttttaattttctataaatatagtaaactgattatttttggtttgttttg-tgctgtgattgtaacttgcaaagtgaagttgtgagtgcagATTTCTTGCG------------CGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAG
                  |||   ||  ||  |||||  | ||  | | | | || | ||          ||| | | |   | || ||| || | | | || |     | | |  |||| ||||              |||||   |||||||| |||||||| ||||||||||||||||| || ||
ttcagtctacttacttgctcagacgtggtttcttttcatttaagtttgaacattgttgatgaagaacagatttagcttccacgtttctaaatttcca-gagATGACACTATTTCGCATTTTTTGCAGCTTGATTTAGTTGGTTTTCAATGGGGGACAGTCAGTACTCGTTTTCTCTCACCACCTTCAG

upper sequence: GLYMA08G17810.3 (Glycine max), 3'ss of exon 1
lower sequence: AT1G16470.1 (Arabidopsis thaliana), 3'ss of exon 1
------------------------------------------------------------------ctttcaagt-gtttttaattttctataaatatagt-aaactgattatt------tttggtttgttttgtgctgtgattgtaacttgc----aaagtga----agttgtgagtg-------cagATTTC------TTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAG
                                                                  || |||| | ||||||||   ||||   || ||   ||||  |    |      |||| |     |   | ||  |   | | || |    ||| |||    | | ||  |||       ||| ||||      ||||          ||||| ||||||||||| ||||||||||||||||| || ||
gtaagctattctcttcacagcgctagttcttttccgaagattcgtgtcgatctcaaaaatcccattctatcaaattgtttttaagactctaatgatttaaccaaaccaaaacctgaatcgtttgatcccggtgacgttgaaaccctgaattccggggaaattgatcctactcgtttgtgttgttcacagCTTTCGCTAATTTGCTTAAGGAGCTATGGGAGATAGTCAGTACTCGTTTTCTCTCACCACTTTCAG

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|37996790|gb|CF808379.1|CF808379
EST:     TCTCTCTCTCGT                         ATTTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCAC
genomic: TCTCTCTCTCGGgttagttttt ... gtgagtgcagATTTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCAC
EST: gi|27424967|gb|CA936487.1|CA936487
EST:     CTCTCTCTCGG                         ATTTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCAC
genomic: CTCTCTCTCGGgttagttttt ... gtgagtgcagATTTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCAC
EST: gi|7690855|gb|AW758992.1|AW758992
EST:     CTCTCTCTCGG                         ATTTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCAC
genomic: CTCTCTCTCGGgttagttttt ... gtgagtgcagATTTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttggtttgttttgtgctgtgattgtaacttgcaaagtgaagttgtgagtgcagATTTCTTGCGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTTCTCTCACCACATTTAG
                       ttgtaac  putative branch site (score: 2)
      tttgtttt  TA-rich tract