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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggaggattcctcatcctccaaatgcattgttgtattattttctgtttttatgaggttcttattttatcaaggaaaagaaaataaaaaagtcactccttattagttgtttctgaataaaagttgtagcacactggaaatataaccaacttagttgtttacagGTAACTGAGCAACCGTCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGATAGAGGGGCTCCAATGGATGCTTTCTTTGTTTAATAACAACTTAAATG

Basic information

species Glycine max
transcript GLYMA20G28120.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g05230.1 (Oryza sativa), 3'ss of exon 6
gtaggaggattcctcatcctccaaatgcattgttgtattattttctgtttttatgaggttcttattttatcaaggaaaagaaaataaaaaagtcactccttattagttgtttctgaataaaagttgtagcacactggaaatataaccaacttagttgtttacagGTAACTGAGCAACCGTCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGATAGAGGGGCTCCAATGGATGCTTTCTTTGTTTAATAACAACTTAAATG
                                                           | ||  |  ||||    |    || |  |     | |||   | |  | |  ||   ||  || |   | || ||      |||  ||    |     |||| ||||||| || ||||| ||    ||| ||||||| || ||||||||||| ||  ||||||| || ||||||||||||||||| || || || || || ||||
---------------------------------------------------------ccttttcctgcatcattacagtacaattgtag----cgctctgcacttttggactc---atgcaactaaaaacaaacattttttattccctttctttgaatttatagGTAACGGAACAACCATCAGCTCTTGAAGGTGGGGAGTTAAGACCATATCAATTAGAGGGCCTGCAATGGATGCTTTCTTTATTCAACAATAATTTGAATG

upper sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G097289_T03 (Zea mays), 3'ss of exon 1
gtaggaggattcctcatcctccaaatgcattgttgtattattttctgtttttatgaggttcttattttatcaaggaaaagaaaataaaaaagtcactccttattagttgtttctgaataaaagttgtagcac-actggaaatataaccaacttagttgtttacagGTAACTGAGCAACCGTCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGATAGAGGGGCTCCAATGGATGCTTTCTTTGTTTAATAACAACTTAAATG
                                                                 |||  |         ||||| | |  || |    | |     |||   |      |||| | |   | | ||    | |      ||| |    |||||||| || || ||||| ||    ||  ||||||| ||||| || ||||| ||  | ||||| |||||||||||||||||||||||||| ||||| || ||||
----------------------------------------------------------------ctttgcccccttttgcaaaatcatagtgtaatcagtgaccctgtgtacttctggtgaagtagcaaggctaatgtttcttttgtgttctttgc-acttacagGTGACAGAACAACCATCAGCTCTCGAAGGTGGGGAATTGAGGCCATATCAACTGGAGGGTCTCCAATGGATGCTTTCTTTGTTTAACAACAATTTGAATG

upper sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G102625_T01 (Zea mays), 3'ss of exon 3
gtaggaggattcctcatcctccaaatgcattgttgtattattttctgtttttatgaggttcttattttatcaaggaaaagaaaataaaaaagtcactccttattagttgtttctgaataaaagttgtagcacactggaaatataaccaacttagtt---gtttacagGTAACTGAGCAACCGTCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGATAGAGGGGCTCCAATGGATGCTTTCTTTGTTTAATAACAACTTAAATG
                                                                 | |   ||    |    |  | ||   | | | ||   | |||  |  ||||   ||  | | ||    ||    | |  |    ||  ||    |||||||||||| || ||||| |||   ||  ||||||| ||||| |||||||| ||| |||| || |||||||||||||||||| | ||||| ||||| || ||||
-----------------------------------------------------------------tatgcaaaaatcatattagcacaaccattaattctgcgt-gtttctggtgaacctaatgtttcgcttg-tgtgtgtgtttctttttttttttgcatttacagGTAACAGAACAACCATCTGCTCTCGAAGGTGGTGAATTGAGACCATATCAGCTAGAAGGTCTCCAATGGATGCTTTCTCTATTTAACAACAATTTGAATG

upper sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 6
gtaggaggattcctcatcctccaaatgcattgttgtattattttctgtttttatgaggttcttattttatcaaggaaaagaaaataaaaaagtcactccttattagttgtttctgaataaaagttgtagca----cactggaaatataaccaacttagttgtttacagGTAACTGAGCAACCGTCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGATAGAGGGGCTCCAATGGATGCTTTCTTTGTTTAATAACAACTTAAATG
                                               |||  |||  || ||||||  ||                     |||  || ||  || |    |   ||||| || | ||  |    ||   |||  |||   || ||     | |  ||||||||||||||||  ||||||||||||||||||||||||||||||||||| |||| ||||| ||||||||||| |||||||| ||||||||  | ||||
-----------------------------------------------tttcaatgctgtgcttattgcattg-------------------gtctttcattgctaat--actggaaataacagatctactattaacaaaagaataatattaaatttcaaactctttagGTAACTGAGCAACCAGCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGTTAGAAGGGCTTCAATGGATGCTCTCTTTGTTCAATAACAATCTGAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctgaataaaagttgtagcacactggaaatataaccaacttagttgtttacagGTAACTGAGCAACCGTCTATGCTTCAAGGTGGAGAATTAAGACCATACCAGATAGAGGGGCTCCAATGGATGCTTTCTTTGTTTAATAACAACTTAAATG
                              atataac  putative branch site (score: 3)
      aataaaagtt  TA-rich tract