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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgcatccttattataaccaggtccttgacttttttagatagagatattaaactagtgtatcatttttcttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA

Basic information

species Glycine max
transcript GLYMA08G05700.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G062761_T02 (Zea mays), 3'ss of exon 2
-------------gtattgcat--ccttatta-taaccaggtccttgactttttt--agatagagatattaaactagtgtatcatttttcttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
               ||||  |   ||| ||| |     | | | | |||| ||   || |  || |  ||  ||    | |  ||  | ||||||||| ||| || ||||| ||| | ||||| || |||||||| || || ||||| ||||| || || || ||||||||||| ||||| || |||||||| ||
gttgttagactccacattgagtggacttgttaatggtttgttacgttacttcttgtgagcttcagtttctatgct----tgttcttggttttgcagCAAGCGTCTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAA

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
-----------gtattgcatccttattataaccaggtccttgacttttttagataga-gatattaaactagtgtatcatttttc--ttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
           || || ||   |  |      |    |      |||||   |||||  ||||| ||  | |  |   || |    || |||| || ||||||||||| |||||||| || || || ||||| ||||| |||||||||||| | || || |||||||||||||| ||||| ||||| |||||
gttagtttctggttttacacattggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G18040.2 (Arabidopsis thaliana), 3'ss of exon 1
--------------gtattgcatccttattataaccaggtccttgacttttttagatagagatattaaactagtgtatcatttttcttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
               |     || | | ||       |  | ||     ||||  |     || | |    |   | |  | ||   | |||| || ||||||||||||||||||||||| ||||||||||| || ||| ||||||||||  | || || || || ||||||||||||||||| || |||||
gcgagtgccttggcttgagaaattcgtgtttccttttgtccattactgcttttcaaactcaatctgatggaaaacttttttattcgatacagCTAATGTGTTTCATCGTGATTTGAAGCCTAAAAATATTCTAGCCAACTCTGATTGCAAGTTGAAGATTTGCGACTTTGGGCTTGCTCGAGTGTCCTTTAA

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 2
-----gtattgcatccttattataaccaggtccttgacttttttagatagagatattaaactagtgtatcatttttc--ttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
      |  |  |   |   | | ||  |    ||  | || | | |||  | |||| ||    |   ||  | ||   ||||||| || ||||||||||| |||||||| ||||| || ||||||||||| |||||||||||  | || || ||||| ||||| || ||||| || || |||||
gttagtttctaaacagtctctttcacttg--tgttatcattatgatataaggttattgaagagctacgtctctgtttgtttgcagCGAATGTGTTTCATCGGGATTTGAAACCAAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAA

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
------gtattgcatccttattataaccaggtccttgactt--ttttagat----agagatattaaactagtgtatcatt-tttcttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
      |  || ||    ||||||| ||    | ||   ||  |||||  |    |  |      ||  |   | | ||  |||||| ||||||| ||||||||||| ||||||||||||||||||||||||||||| || || |||||  | || || |||||||||||||||||||| || ||||| ||
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA

upper sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 3'ss of exon 2
---------------------------gtattgcatccttattataaccaggtccttgacttttttagatagagatattaaactagtgtatcatttttcttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
                            || || ||  | ||  |||     |   || ||  ||| |||   ||  |    ||  | | |   |  |  |  ||| || || |||||||| ||| | |||||||| ||| |  | || |||||||||||||| || ||||| ||||||||||| |||||||| ||  | || | 
tgaaaatgtaactatatttcaagaagaatagtggattatgatc-taat-gaatgtgtgtctcgtttggatgttgacgt---gcttctatttgggtgatgctttagCTAATGTATTTCATCGCGATCTCAAGCCAAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtccttgacttttttagatagagatattaaactagtgtatcatttttcttgcagCAAACGTGTTTCATCGTGATTTGAAGCCAAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
   ccttgac  putative branch site (score: 4)
                                        tcatttttctt  putative PPT
          ttttttagatagagat  TA-rich tract