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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatagaataatttatttaatttaattttgttataatggatacttaaaatgttaaaattttgtagGTTCTTCTGTCTATATGCTCTCTATTGACAGACCCTAACCCAGATGATCCTCTGGTGCCTGAGATTGCTCAAATGTACAAGACTAACAGAGCCAAGTATG

Basic information

species Glycine max
transcript GLYMA16G17800.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G17800.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g57220.1 (Oryza sativa), 3'ss of exon 4
---------gtaatagaataatttatttaatttaattttgttataatggatacttaaa-atgtta-----aaattttgtagGTTCTTCTGTCTATATGCTCTCTATTGACAGACCCTAACCCAGATGATCCTCTGGTGCCTGAGATTGCTCAAATGTACAAGACTAACAGAGCCAAGTATG
            ||    | ||||    | |||     |  | | |    |  | ||   |||||     || | |   |||| || ||||| || || || ||  |||| ||||| ||||| ||||||||  ||||||| ||||||||||| |||||||||||| | || ||||||||||
gtaattatcagcatgacctgatttcaacattttggcccttctgtgacacctgatgaattgtgttatcattaattctaacagGTCCTCCTGTCAATTTGTTCACTGCTGACGGACCCGAACCCCGATGATCCGTTGGTGCCGGAGATTGCTCACATGTACAAGACTGATAGGGCCAAGTATG

upper sequence: GLYMA16G17800.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G102471_T03 (Zea mays), 3'ss of exon 3
----------------------------------gtaatagaataatttatttaatttaattttgttataatggatacttaaaatgttaaaattttgtagGTTCTTCTGTCTATATGCTCTCTATTGACAGACCCTAACCCAGATGATCCTCTGGTGCCTGAGATTGCTCAAATGTACAAGACTAACAGAGCCAAGTATG
                                       |||| | | | || ||  || ||||||     |    |  |    ||||     ||   ||||||| ||||| || ||||| ||  | || ||||| ||||| ||||||||||| || |||||||||||||| |||||||||||  |||| ||||||||||
ttgtggttagctaatatgatattgtggttatgttccttgagaacagtatgttcaagatagttttgtctgtttactgatctgttctgttctgtattaacagGTTCTCCTGTCAATCTGCTCACTGCTCACGGACCCAAACCCTGATGATCCTCTTGTCCCTGAGATTGCTCACATGTACAAGACCGACAGGGCCAAGTATG

upper sequence: GLYMA16G17800.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G102471_T05 (Zea mays), 3'ss of exon 4
-----------------gtaatagaataatttatttaatttaattttgttataatggatacttaaaatgttaaaattttgtagGTTCTTCTGTCTATATGCTCTCTATTGACAGACCCTAACCCAGATGATCCTCTGGTGCCTGAGATTGCTCAAATGTACAAGACTAACAGAGCCAAGTATG-----------------
                      |||| | | | || ||  || ||||||     |    |  |    ||||     ||   ||||||| ||||| || ||||| ||  | || ||||| ||||| ||||||||||| || |||||||||||||| |||||||||||  |||| ||||||||||                 
gatattgtggttatgttccttgagaacagtatgttcaagatagttttgtctgtttactgatctgttctgttctgtattaacaggttctcctgtcaatctgCTCACTGCTCACGGACCCAAACCCTGATGATCCTCTTGTCCCTGAGATTGCTCACATGTACAAGACCGACAGGGCCAAGTATGAGTCCACCGCACGCTCC

upper sequence: GLYMA16G17800.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv19s0015g01190.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------gtaatagaataatttatttaatttaattttgttataatggat----acttaaaatgttaaaattt----tgtagGTTCTTCTGTCTATATGCTCTCTATTGACAGACCCTAACCCAGATGATCCTCTGGTGCCTGAGATTGCTCAAATGTACAAGACTAACAGAGCCAAGTATG
                           |  | | |  |    |||||   |          |||||  |     ||    || || ||   |    || ||||  | || ||||||||||| ||  |||| || || ||||| ||||||||  ||||||| || ||||| || |||||||||||  |||||||||| ||||
ttttatttaccagtgaaagaaacagctgggacatag-aggccatttagggtgccagaacagtaatgagtttgtgctctgtattttcaatgctggcctgcagGTGTTGCTCTCTATATGCTCGCTGCTGACGGATCCAAACCCGGATGATCCCTTGGTGCCAGAAATTGCCCACATGTACAAGACCGACAGAGCCAAATATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttatttaatttaattttgttataatggatacttaaaatgttaaaattttgtagGTTCTTCTGTCTATATGCTCTCTATTGACAGACCCTAACCCAGATGATCCTCTGGTGCCTGAGATTGCTCAAATGTACAAGACTAACAGAGCCAAGTATG
         atttaat  putative branch site (score: 4)
     tttaatttaattttgt  TA-rich tract