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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtggtgtatatttatatttttttctctaagtaattatccttggattcaatgcttacatgcttatattgggattacagATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATGCCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT

Basic information

species Glycine max
transcript GLYMA18G02960.1
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 22
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 23
-----------------gtttgtggtgtatatttatatttttttctctaagtaatta--tccttggattcaatgcttacatgcttat--attgggattac-agATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATGCCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT
                  ||  |  |   | || || || |||  ||| | |  |||  ||| |  ||| | |||||||||    ||  ||| | ||| | || ||||| ||||| || |||||||||||||| ||||| ||||||||  | ||||| ||||  || ||||||||||| ||||| || || || ||||| |||
gtatgcaaattgtttttattcttcataccttttaattttatttcttctgaatctttaaatccatctattgattgcttacatagaaatcgatttgaattgccagGTATGTGGTTGAAAGAATGGATGGTGATCTGTGGGATAAAGTTCTACAGCCTGAAAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCTACGGCT

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 22
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 23
-------------gtttgtggtgtatatttatatttt---tttctctaagtaatta--tccttggattcaatgcttacatgcttat--attgggattac-agATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATGCCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT
              ||| |  |  ||| || || |||   ||  ||| | |  |||  ||| | |||| | |||||||||    ||  ||| | ||| | || ||||| ||||| || |||||||||||||| ||||| ||||||||  | ||||| ||||  || ||||||||||| ||||| || || || ||||| |||
gtatgcaaattgtttttattcttcatacttttaattttatttcttctgaatctttaaatccatcgattgattgcttacatagaaatcgatttgaattgccagGTATGTGGTTGAAAGAATGGATGGTGATCTGTGGGATAAAGTTCTACAGCCTGAAAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCTACGGCT

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
----------------------gtttgtggtgtatatttatattttt--ttctctaagtaattatccttggattcaatgcttacat-gcttatatt-gggattacagATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATGCCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT
                      |||  || ||  | ||  |  ||    | |||||  || | | |  ||| |    || | |  |  | || |||    ||| ||||||||| |||||||| |||||||||||||| ||||| ||||||||| | ||||| ||||  || ||||||||||| ||||| || || || || || || 
gtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G111355_T01 (Zea mays), 3'ss of exon 3
---------------gtttgtggtgtatatttatatttttttctctaagtaattatccttggattcaatgcttacatgcttatattg----------ggattacagATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATGCCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT
                 |||| |||  |  | | |  | ||||   | ||    |||  | |  | |   |||||||| | ||||||            || |||| ||||| |||||||| |||||||||||||| ||||| ||||||||| | || || ||||  || ||||||||||| ||||| || || || || || || 
gtatgtaataatttttattgttgtgacttgtgacacctgtttcaagatgtccacatcaattgtctgacgacttacatgttcatattgcatttatttaaaatgacagGTATGTGGTTGAGAGAATGGATGGTGATCTATGGGATAAAGTTCTTCAGCCCGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACTGCA

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G325285_T01 (Zea mays), 3'ss of exon 12
---------------gtttgtggtgtatatttatatttttttctctaagtaattatccttggattcaatgcttacatgcttatattg----------ggattacagATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATGCCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT
                 |||| |||  |  | | |  | ||||   | ||    |||  | |  | |   |||||||| | ||||||            || |||| ||||| |||||||| |||||||||||||| ||||| ||||||||| | || || ||||  || ||||||||||| ||||| || || || || || || 
gtatgtaataatttttattgttgtgacttgtgacacctgtttcaagatgtccacatcaattgtctgacgacttacatgttcatattgcatttatttaaaatgacagGTATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCCGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACTGCA

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 22
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 23
------gtttgtggtgtata----tttatatttttttctctaagtaattatccttggattcaatgcttacatgcttatattgggattacagATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATGCCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT
      | || | |  ||      ||  || || | |  |  | || |||   |    |  | | ||||||  |  || ||   | | ||| || || || ||||||||||||||||| || |||||||| |||||||     || ||||  || || ||||||||||| || || ||||| ||||| |||
gtatttgattattgcttactagacttcttacttatattccacactagttacttt---gtagactacttacacacg-attttccaactgcagGTACGTAGTGGAGAGGATGGATGGTGACCTCTGGGAGAAGGTTCTTACGGAAGAAAATGAATATAGGAGGCAACTTATAGACCAAGTTGTGTCTACTGCT

upper sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 23
gtttgtgg--tgtatattt----atatttttttctctaagtaattatccttgg-attcaatgcttacatgcttatattgggattacagATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATGCCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT
|||||||   ||| || ||    |||| || |  | |   |   |    |||| |         ||| | |  ||| |   ||| ||||||||| ||||| |||||||||  |||||| ||||||||||||||| ||||||||||||  || ||||| || || |||||||| || |||||||| |||
gtttgtgacttgtttacttcccgatatattatcatatgcatggattcatttggtacatggacgctacttacacatacttccatttcagATATGTAGTTGAAAGGATGGATTCTGATCTCTGGGAGAAAGTTCTTGACCCTGATAATGATTATAGAAGACAGCTCATTGATCAAGTAGTATCTACTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctaagtaattatccttggattcaatgcttacatgcttatattgggattacagATATGTTGTTGAGAGGATGGATGGTGATCTTTGGGAGAAAGTTCTTAACCCTGATAATGCCTACAGAAGGCAACTTATTGATCAGGTTGTATCTACAGCT
                           tgcttac  putative branch site (score: 2)
     aagtaattat  TA-rich tract