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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttatttccgtcaatgccatcggcgttcgttttggtccttaatcttataatgttttcaattcatcgtgttttgtttgtaattttaggaattattaattagttgtgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACCGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG

Basic information

species Glycine max
transcript GLYMA02G05440.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g03410.1 (Oryza sativa), 3'ss of exon 1
gtatttatttccgtcaatgccatcggcgttcgttttggtccttaatcttataatgttttcaattcatcgtgttttgtttgtaattttaggaattattaattagttgtgctttaa-atttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACCGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
                      | |  |   | | ||    |  ||  | | ||||||    |  |   |   || | | ||   |  |  |||       | |||   ||| | ||||  |||||||||||||  ||| |||| || |||||||| ||| |||| || |||||  | |||| |||||  |||||||||||| | ||||| ||||| ||||| ||||
----------------------tggatgcatgctctg--tatagatgcttttatgttt---gtctactctacattatctttaggatatgtgattgaaggcgatttgaattttgatattttatggcagATGGTTCGCCCTGTTGCTGTGGAGGATGTAAAGAGAGAAGTGAAGATTCTTAAAGAACTTAAAGGCCATGAGAATATTGTTCACTTCTACAATGCGTTTG

upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G66210.2 (Arabidopsis thaliana), 3'ss of exon 2
gtatttatttccgtcaatgccatcggcgttcgttttggtccttaatcttataatgttttcaattcatcgtgttttgtttgtaattttaggaattattaattagttgtgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACCGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
               | |||  |     |    |||  |    ||  || |  |||  |   || |  |  |  | |       |||  |  | | | || |    || |||      | |  ||||||||||| |||||||| ||||||||||| ||||| |||||  ||||  | |  || ||  | ||||| |||||||| ||||||||  | ||||| ||||
---------------agtgctctttctctgttctttcatttgcaacattgttctgtggt---tttactgcatcctctgctctgctttgagg-tcactcatca-ccatgtttt------gctcacagATGGTTCTTCCTATTGCTGTTGAGGATGTCAAGCGTGAGGTTCAGATTCTTATTGCTCTCTCTGGCCACGAGAATGTTGTTCAGTTTCACAATGCCTTTG

upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 1
gtatttatttccgtcaatgccatcggcgttcgttttggtccttaatcttataatgttttcaattcatcgtgttttgtttgtaattttaggaattattaattagttgtgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACCGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
                  || |     |||   ||| ||   |  ||    ||| |||| |  |     ||  || |||||  || |     |||  |   | | ||  |    ||||| ||||||||| |||| |||||||| ||||| || ||||||||||||||||| |||||  |||| |||||||||||||||||||||||||||||| ||||||| ||||
----------------gggcaaagaatgttttgtttagtttctgttc----aattttttgacatttctatgcatt-tttgttgttatcatgtttac-agcaaatggtttt----atttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTAGAAGCGCTTACCGGCCATGAGAATGTGGTTCAGTTCCATAATGCATTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgtttgtaattttaggaattattaattagttgtgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACCGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
                      tattaat  putative branch site (score: 2)
     tttgtaattttaggaa  TA-rich tract