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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcttaacatgttctggcattttcttagttattttttttagtttggataaaaagaaagcattaatttgggatgtgaagtatgaactctttttattatgaagatttgcattgctaatgtgtaaaacagACAGGGAGGAAACCTAGCGGATTATGCGGTGCAGCATTATACATATCTGCTCTTGCTCATGGTATTAAGTGCTCTAAGCCGGATATT

Basic information

species Glycine max
transcript GLYMA19G29580.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G29580.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G096389_T05 (Zea mays), 3'ss of exon 7
gtttcttaacatgttctggcattttcttagttattttttttagtttggataaaaagaaagcattaatttgggatgtgaagtatgaactctttttattatgaagatttgcattgctaatgtgtaaaacagACAGGGAGGAAACCTAGCGGATTATGCGGTGCAGCATTATACATATCTGCTCTTGCTCATGGTATTAAGTGCTCTAAGCCGGATATT
               | ||  ||| ||      ||| ||||    |  ||||          ||  |||        | |     | |   |||| |     | | |   || |             |||| |||||||| || ||||||||||| |||||||||||||||||  |||| ||  |||||||   ||| | | | ||| | ||||||
--------------gcaggtgtttcctc-----tttcttttgtccttcataa--------tttttcttt----cacaaggctgtgattggctttactgccctgctctatgttcc-------------agACTGGGAGGAAGCCAAGCGGATTATGTGGTGCAGCATTATACATTGCTGCACTCTCTCATGGGTGTAATTACACCAAGGCAGATATT

upper sequence: GLYMA19G29580.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G109651_T03 (Zea mays), 3'ss of exon 9
gtttcttaacatgttctggcattttcttagttattttttttagtttggataaaaagaaagcattaatttgggatgtgaagtatgaactctttttattatgaagatttgcattgctaatgtgtaaaacagACAGGGAGGAAACCTAGCGGATTATGCGGTGCAGCATTATACATATCTGCTCTTGCTCATGGTATTAAGTGCTCTAAGCCGGATATT
               | | |||||  |   |  ||||| ||                   |  || ||||   | | | |      |||   ||    |       ||| |||||    | |    ||||| ||||||||||| || |||||||| |||||||||||||||||  |||| ||  |||||||   ||| | | | ||| | ||||||
--------------gcagacatttcttctttcgtttttctt-------------------ccatattttgttctttcacg---aggctccgattggctta-----ctgccttgctc---tatgttgcagACTGGGAGGAAACCAAGTGGATTATGTGGTGCAGCATTATACATTGCTGCACTCTCTCATGGGTGTAATTACACCAAGGCAGATATT

upper sequence: GLYMA19G29580.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G150362_T01 (Zea mays), 3'ss of exon 2
gtttcttaacatgttctggcattttcttagttattttttttagtttggataaaaagaaagcattaatttgggatgtgaagtatgaactctttttattatgaagatttgcattgctaatgtgtaaaacagACAGGGAGGAAACCTAGCGGATTATGCGGTGCAGCATTATACATATCTGCTCTTGCTCATGGTATTAAGTGCTCTAAGCCGGATATT
               | ||  ||| ||      ||| ||||    |  ||||        | ||  |||        | |     | |   |||| |     | | |   || |             |||| |||||||| || ||| ||||||| |||||||||||||||||  |||| ||  |||||||   ||| | | | ||| | ||||||
--------------gcaggtgtttcctc-----tttcttttgtccttcataa--------cttttcttt----cacaaggctgtgattggctttactgccctgctctatgttcc-------------agACTGGGAGGAAGCCAAGCAGATTATGTGGTGCAGCATTATACATTGCTGCACTCTCTCATGGGTGTAATTACACCAAGGCAGATATT

upper sequence: GLYMA19G29580.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G09360.1 (Arabidopsis thaliana), 3'ss of exon 9
gtttcttaacatgttctggcattttcttagttattttttttagtttggataaaaagaaagcattaatttgggatgtgaagtatgaactctttttattatgaagatttgcattgctaatgtgtaaaacagACAGGGAGGAAACCTAGCGGATTATGCGGTGCAGCATTATACATATCTGCTCTTGCTCATGGTATTAAGTGCTCTAAGCCGGATATT
                ||  | ||| |||  |   | | |   ||   ||  |      || |||   |    |   || |||||  | | || ||  |  || |  | ||||      ||     ||||| ||  |||| ||||| ||| |||| || |||||| | |||| | |||||||| |||||||||| |||||||||||| | ||||||
---------------gtgtgactttgttatgttagtgtatcgtttcctatgtacgctttgccttagagttaatta--aattatgagttatgttaatatt--agctacgtattg---gcttg-----cagACCGGCCGGAAGCCTAGTGGAATATGTGGAGCAGCACTTTACACAGCTGCTCTTTCTCATGGTATCAAGTGCTCTAAGACAGATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaagtatgaactctttttattatgaagatttgcattgctaatgtgtaaaacagACAGGGAGGAAACCTAGCGGATTATGCGGTGCAGCATTATACATATCTGCTCTTGCTCATGGTATTAAGTGCTCTAAGCCGGATATT
                                     tgctaat  putative branch site (score: 2)
               tttttattatgaagat  TA-rich tract