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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagattgtatgctaaactagttgaagggaaaatggcgtggaagtaatcttcaggctattttcaatataactcaaaagtgatatctttgttggaagtgcagGGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTGAAAATGCTATTTTCACCATCCCTCCCGAGCTAGCTTATGGTGAATCTGG

Basic information

species Glycine max
transcript GLYMA08G46090.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G46090.2 (Glycine max), 3'ss of exon 2
lower sequence: AT3G25230.1 (Arabidopsis thaliana), 3'ss of exon 2
----------------------------------------------------------------------tagattgtatgcta--aact--agttgaagggaaaatggcgtggaagtaatcttcaggctattttcaatataactcaaaagtgatatctttgttggaagtg--------cagGGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTGAAAATGCTATTTTCACCATCCCTCCCGAGCTAGCTTATGGTGAATCTGG
                                                                      ||  |||   | ||  ||||  | ||||     |  ||  ||  |  | |   ||    | || |  ||  |  |  || |   | |  ||||||| | ||        |||| ||||| |||||||||||||||   |||||||| || ||||||||||||||||| ||| ||||||| || ||| | |||||||| ||||| ||||||||
gtttgtgattctcatctcctaaagacctaatagtttccgtatagttagtaatctggagaattcggtagactaatttgatagatatgaacttgaattgagatatagttgttgttaagttcaaaatcgaatttttgttgatgaatgtgtaatggtttgtggttgttggcattgtgtttttgcagGTCAAGTTATTAAAGGATGGGATATTGGTATTAAGACGATGAAGAAAGGTGAAAACGCTGTTTTCACTATACCTGCGGAGCTAGCATATGGGGAATCTGG

upper sequence: GLYMA08G46090.2 (Glycine max), 3'ss of exon 2
lower sequence: AT5G48570.1 (Arabidopsis thaliana), 3'ss of exon 2
tagattgtatgctaaactagttgaagggaaaatggcgtggaagtaatcttcaggctattttcaatataactcaaa-----agtgatatctttgttggaagtg--cagGGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTGAAAATGCTATTTTCACCATCCCTCCCGAGCTAGCTTATGGTGAATCTGG
      ||  |  ||  |  | |  | ||   ||   ||   |  |  | |    || || |  | |   || |      | |  | | || ||| | | ||  |||| || || ||||||||||||||    || || || || |||||||||||||||||||||||||||||||| ||||| ||||| || ||||||||| | ||
------gtgagagaagttt-tggttgagagtttgttttgatcgatagttactatttaattacggtgtctttcgagttctgaattttgttttggtttggaatggtcagGACATGTCATTAAAGGATGGGACTTGGGGATCAAGACAATGAAGAAAGGTGAAAATGCTATTTTCACCATTCCTCCTGAGCTGGCATATGGTGAAACCGG

upper sequence: GLYMA08G46090.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0769g00010.t01 (Vitis vinifera), 3'ss of exon 2
tagattgtatgctaaactagttgaagggaaaatggcgtggaagtaatcttcaggctattttcaatataa-ctcaaaagtgatatctttgttggaagtgcagGGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTGAAAATGCTATTTTCACCATCCCTCCCGAGCTAGCTTATGGTGAATCTGG
 | ||| | |   |||    ||   |  |||| ||  |||  || ||        |     |   | |  |||  |  |  |  ||||| ||  |    ||||||||| || || ||||||||  |||| || || ||||||||||| ||||||||||| || ||||| || ||||| ||  | || |||||||| |||||
-aaattttctttgaaagattttattgctaaaaaggtttggctgttattggatccttggagacggaacactctcttatcttcttcctttgctgtgatgatagGGCAAGTGATCAAGGGATGGGACCAAGGAATCAAGACCATGAAGAAGGGTGAAAATGCCATCTTCACTATTCCTCCTGAATTGGCCTATGGTGAGTCTGG

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|209724187|gb|BW659721.1|BW659721
EST:     TGATTCGAGCCGCGACAGGGATTCTCCCTTCAGCTTCACGCTCGGACAAG                         GGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTG
genomic: TGATTCGAGCCGCGACAGGGATTCTCCCTTCAGCTTCACGCTCGGACAAGgtttgccatc ... ggaagtgcagGGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTG
EST: gi|16996514|gb|BM085886.1|BM085886
EST:     TGATTCGAGCCGCGACAGGGATTCTCCCTTCAGCTTCACGCTCGGACAAG                         GGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTG
genomic: TGATTCGAGCCGCGACAGGGATTCTCCCTTCAGCTTCACGCTCGGACAAGgtttgccatc ... ggaagtgcagGGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTG
EST: gi|254338207|gb|GR845563.1|GR845563
EST:     TGATTCGAGCCGCGACAGGGATTCTCCCTTCAGCTTCACGCTCGGACAAG                         GGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTG
genomic: TGATTCGAGCCGCGACAGGGATTCTCCCTTCAGCTTCACGCTCGGACAAGgtttgccatc ... ggaagtgcagGGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttcaggctattttcaatataactcaaaagtgatatctttgttggaagtgcagGGCAAGTAATTAAAGGATGGGATGAAGGTATTAAAACCATGAAGAAAGGTGAAAATGCTATTTTCACCATCCCTCCCGAGCTAGCTTATGGTGAATCTGG
                  atataac  putative branch site (score: 3)
          tattttcaatataact  TA-rich tract