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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaggtgtaaaatagttttgctttaagctgtgatccatagatctttagagtatattttgcctcaatgtccattttggtgactgataattttttcatatcagGAAGCACAAATACGCAACGAAAAATATGTCTTGGAAAAGCGCATTGCATATATGCGTCTG

Basic information

species Glycine max
transcript GLYMA10G31880.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G31880.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os05g01060.2 (Oryza sativa), 3'ss of exon 5
gtaaaaggtgtaaaatagttttgctttaagctgtgatccatagatctttagagtatattttgcctcaatgtccattttggtgactgataattt---tttcatatcagGAAGCACAAATACGCAACGAAAAATATGTCTTGGAAAAGCGCATTGCATATATGCGTCTG
                             ||| ||  | |||   ||  |    ||  |||     | |         |||   ||| |  ||   |||| |   ||||||||||||||| |||||| ||| |||| |||||||| ||||||||||| |||||  ||
--------------------------gtggctatgcacaataagactc-actacattcttttttctactcctttcccaggtatttgacagcttatgtttcttggtagGAAGCACAAATACTCAACGAGAAACATGTTTTGGAAAAACGCATTGCATACATGCGAATG

upper sequence: GLYMA10G31880.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G08440.2 (Arabidopsis thaliana), 3'ss of exon 5
gtaaaaggtgtaaaatagttttgctttaagct---gtgatccatagatctttagagtatattttgcctcaatgtccattttggtgactgataattttttcatatcagGAAGCACAAATACGCAACGAAAAATATGTCTTGGAAAAGCGCATTGCATATATGCGTCTG
         |||||      | | ||||| ||   ||| |  ||  ||  || |   || ||   |  || ||||    |   | ||   |     | |  | | ||||||  ||||||||||| ||||||||||| ||||||||||| |||||  | ||||||  |
---------gtaaatcg--ctagttttaatctctagtgttttatgcatacttggttgat-ttacactacattgtc----tgaataaccttttggcctgtttttttagGAAGTCCAAATACGCAATGAAAAATATGTTTTGGAAAAGCGTATTGCGCACATGCGTTCG

upper sequence: GLYMA10G31880.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G23490.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaaaaggtgtaaaatagttttgctttaagctgtgatccatagatctttagagtatattttgcctcaatgtccattttggtgactgataattttttcatatca--gGAAGCACAAATACGCAACGAAAAATATGTCTTGGAAAAGCGCATTGCATATATGCGTCTG
 ||||   ||||    | |  ||||||  | ||   | |||    | ||  | | | | ||   |  |||   | |  | ||||| | | |||  | || | |  |||||| ||||| ||||| |||||||||||  |||||||| | ||||| || |||||||||
ataaactatgtagt-cattaatgctttctgttg--gttcat---cccttgcattctttgttaattttatgctaaatcagatgactaacattttagttatcttatagGAAGCCCAAATTCGCAATGAAAAATATGTTCTGGAAAAGAGAATTGCCTACATGCGTCTG

upper sequence: GLYMA10G31880.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0130g00420.t01 (Vitis vinifera), 3'ss of exon 5
------------------------------------------------gtaaaaggtgtaaaatagttttgctttaagctgtgatccatagatctttagagtatattttgcctcaatgtccattttggtgactgataattttttcatatcagGAAGCACAAATACGCAACGAAAAATATGTCTTGGAAAAGCGCATTGCATATATGCGTCTG
                                                 | |||  | | |  | ||   |  ||   |   |||  ||| |||||  || |   ||||   |  || |  | |   |  | | ||   | ||   | | ||||||||||||||||||| || ||||||||  ||||||| |||||||| ||||||||| ||
gtaagaaaggggaatgcgatttgatttttttttttcccctttttgttaatcaaacatatgatgttgtcaagtattt--cctggatgaatatatctt--gatttatttttattttcatattaactaaagcaattcatcgctgttgtttgt-agGAAGCACAAATACGCAATGAGAAATATGTTCTGGAAAAACGCATTGCTTATATGCGTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagtatattttgcctcaatgtccattttggtgactgataattttttcatatcagGAAGCACAAATACGCAACGAAAAATATGTCTTGGAAAAGCGCATTGCATATATGCGTCTG
                                gactgat  putative branch site (score: 3)
                                         ttttttcat  putative PPT
                                   tgataattttttcata  TA-rich tract