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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgataatggcacttctttttgctcttcttctccctcgcgtaattgacagcaaattatgcgatgttaagccatgccttttgtttaaacagGATGAGAAAGAATGCTCCTACTATTTGAAAACAGGGCAGTGCAAATATGGTATATCTTGTAAATTCCATCATCCTCAACCGGCGGGCACATCATTGCCAG

Basic information

species Glycine max
transcript GLYMA10G02540.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G02540.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G036837_T02 (Zea mays), 3'ss of exon 4
gtatgataatggcact-tctttttgctcttcttctccctcgcgtaattgacagcaaattatgcgatgttaagccatgccttttgtttaaacagGATGAGAAAGAATGCTCCTACTATTTGAAAACAGGGCAGTGCAAATATGGTATATCTTGTAAATTCCATCATCCTCAACCGGCGGGCACATCATTGCCAG
|||||| |||    || |  || || |  |    |   |   ||| |       ||| ||   ||  ||||   |               |||| |||||||||||||||||||||| |||| || ||||| ||||| | ||||    | |||||||| ||||||||  ||   |  || |   |  || |  
gtatgagaattctcctatgattgtgtttcttggattttttaagtattattggaaaaaataattgacattaatgaa------------gtgcagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCGGTGACCC

upper sequence: GLYMA10G02540.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G086994_T01 (Zea mays), 3'ss of exon 4
gtatgataatggcacttctttttgctcttcttctccctcgcgtaattgacagcaaattatgcgatgttaagccatgccttttgtttaaacagGATGAGAAAGAATGCTCCTACTATTTGAAAACAGGGCAGTGCAAATATGGTATATCTTGTAAATTCCATCATCCTCAACCGGCGGGCACATCATTGCCAG
|||||| |||      || | | | | | |||||   |  | |  || || |    || || ||    ||    | | ||      |  |||| |||||||||||||||||||||| |||| || ||||| ||||| | ||||    | |||||||| ||||||||  ||   |  || |   |  |  |  
gtatgagaat----tctcctatggatgtgcttctttgtaacatttttaactgt---ttttgggaa---aaaatttacattaatgaaatgcagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCGGTAACCC

upper sequence: GLYMA10G02540.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G086994_T03 (Zea mays), 3'ss of exon 4
gtatgataatggcacttctttttgctcttcttctccctcgcgtaattgacagcaaattatgcgatgttaagccatgccttttgtttaaacagGATGAGAAAGAATGCTCCTACTATTTGAAAACAGGGCAGTGCAAATATGGTATATCTTGTAAATTCCATCATCCTCAACCGGCGGGCACATCATTGCCAG
|||||| |||      || | | | | | |||||   |  | |  || || |    || || ||    ||    | | ||      |  |||| |||||||||||||||||||||| |||| || ||||| ||||| | ||||    | |||||||| ||||||||  ||   |  || |   |        
gtatgagaat----tctcctatggatgtgcttctttgtaacatttttaactgt---ttttgggaa---aaaatttacattaatgaaatgcagGGTGAGAAAGAATGCTCCTACTATATGAAGACTGGGCAATGCAAGTTTGGTTCTACATGTAAATTTCATCATCCAGAATTTGGTGGTATTCCG-------

upper sequence: GLYMA10G02540.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G47850.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgataatggcacttctttttgctcttcttctccctcgcgt-aattgacagcaaattatgcgatgttaagccatgccttttg---tttaaacagGATGAGAAAGAATGCTCCTACTATTTGAAAACAGGGCAGTGCAAATATGGTATATCTTGTAAATTCCATCATCCTCAACCGGCGGGCACATCATTGCCAG
                     |     || ||  | |||  || || | | ||   | | | |||  ||     ||   || |    | |    ||| ||| || ||||||||||||||||||||||| ||||| ||||||| ||||||| | |||||||| ||||||||||| || || || ||  |  | ||| 
--------------------gtaagctttgtttccactcatgtcaaataaaaggctagtct-cgagtttgcatgatcttttataaactctttgtagGGTGATAACGAATGCTCCTACTATTTGAAAACGGGGCAATGCAAATTTGGTATAACCTGTAAATTTCATCATCCTCAGCCTGCTGGTACTACTGTCCCAC

upper sequence: GLYMA10G02540.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G47850.2 (Arabidopsis thaliana), 3'ss of exon 4
gtatgataatggcacttctttttgctcttcttctccctcgcgt-aattgacagcaaattatgcgatgttaagccatgccttttg---tttaaacagGATGAGAAAGAATGCTCCTACTATTTGAAAACAGGGCAGTGCAAATATGGTATATCTTGTAAATTCCATCATCCTCAACCGGCGGGCACATCATTGCCAG------------------------------------------------------------------------------
                     |     || ||  | |||  || || | | ||   | | | |||  ||     ||   || |    | |    ||| ||| || ||||||||||||||||||||||| ||||| ||||||| ||||||| | |||||||| ||||||||||| || || || ||  |  | |||                                                                               
--------------------gtaagctttgtttccactcatgtcaaataaaaggctagtct-cgagtttgcatgatcttttataaactctttgtagggtgataacgaatgctcctactatttgaaaacggggcaatgcaaatttggtataacctgtaaatttcatcatcctcagCCTGCTGGTACTACTGTCCCACCACCACCAGCATCTGCACCTCAGTTTTATCCATCGGTGCAGTCACTTATGCCTGACCAGTATGGAGGTCCATCTTCTA

upper sequence: GLYMA10G02540.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0104g01460.t01 (Vitis vinifera), 3'ss of exon 4
------------------------gtatgataatggcacttctttttgctcttcttctccctcgc------gtaattgacag--caaattatgcgatgttaagccatgccttttgtttaaacagGATGAGAAAGAATGCTCCTACTATTTGAAAACAGGGCAGTGCAAATATGGTATATCTTGTAAATTCCATCATCCTCAACCGGCGGGCACATCATTGCCAG
                         | |  ||||   | |  ||||      ||  |    | |       | ||| ||||   | | |||    ||||| |   ||      | ||  |||||| |||||||||||||||||||||||||||||| ||||||||||| | ||||||| | ||||||||||||||||||||||| || ||||||||||||||||
gttgggatttggtttattcttcaccttttctaatcaaattcgttttactaaatcagcatggttgtaatttgggaatggacacttccatttagcttatgtttatgaattggaaattttgcaacagGGTGAGAAAGAATGCTCCTACTATTTGAAAACGGGGCAGTGCAAGTTTGGTATAACATGTAAATTCCATCATCCTCAACCAGCTGGCACATCATTGCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgcgtaattgacagcaaattatgcgatgttaagccatgccttttgtttaaacagGATGAGAAAGAATGCTCCTACTATTTGAAAACAGGGCAGTGCAAATATGGTATATCTTGTAAATTCCATCATCCTCAACCGGCGGGCACATCATTGCCAG
      aattgac  putative branch site (score: 3)
                                       ccttttgttt  putative PPT
                                         ttttgtttaaa  TA-rich tract