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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcattcaaaaaaatttagtgacatgtacttgcattttatcattacttctctctctgtctcctcactaaggccaaaataatgcagGCAGAAAATGCCCTGGATCAGATGGATTGGATGGAAAAGATAACTGGTGTAATTGCCTCCTTATTGAGTGCACAAACACTG

Basic information

species Glycine max
transcript GLYMA06G17300.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os09g33600.1 (Oryza sativa), 3'ss of exon 13
----------------------------------gtcattcaaaaaaattta-gtgacatgtacttgcattttatcattacttctctctctgtctcctcac-taaggccaaaataatgcagGCAGAAAATGCCCTGGATCAGATGGATTGGATGGAAAAGATAACTGGTGTAATTGCCTCCTTATTGAGTGCACAAACACTG------
                                   | ||| | | | |||||  | ||| | | ||     |       |  | |||  ||  ||  | || |    |   | |   ||||||||| | |||  ||||||||||||||||||| ||||| ||||||||||| || || || ||  ||||  | ||| | |        
gtacaaatatttaccagaaatctgttgcatctattttatttagatagatttatattacaggaatttttgaatagctgccagatttcttccttcctaatgacatgcacctctatttgggcagGCAGAGAGTGCGATGGATCAGATGGATTGGATTGAAAAAATAACTGGTGTCATCGCTTCTTTGCTGAGCTCCCAATCGCCCGAACGG

upper sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 3'ss of exon 13
--gtcattcaaaaaaatttagtgacatgtacttgcattttatcattacttctctctctgtctcctcactaaggccaaaa-----taatgcagGCAGAAAATGCCCTGGATCAGATGGATTGGATGGAAAAGATAACTGGTGTAATTGCCTCCTTATTGAGTGCACAAACACTG------
   | | |  || |       ||| || |   | ||| |      || |||  | | |      | | | |  |||        |   ||||||||| | |||  | ||||| ||||||||||| |||||||| |||||||| ||||| || ||  | ||  ||||| | |        
gtatgagtacaatattgaagatgatat-tgtcttcatgtcgaatataattcgatatttcctatttaagtgacaccatctattttttgagcagGCAGAGAGTGCAATAGATCAAATGGATTGGATTGAAAAGATTACTGGTGTCATTGCATCTTTGCTTAGCTCACAATCCCCAGAACAG

upper sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G093670_T01 (Zea mays), 3'ss of exon 4
gtcattcaaaaaaatttagtgacatgtac-ttgcattttatcattacttctctctctgtctcctcactaaggccaaaata-atgcagGCAGAAAATGCCCTGGATCAGATGGATTGGATGGAAAAGATAACTGGTGTAATTGCCTCCTTATTGAGTGCACAAACACTG------
||    || |    | | |||   | | | ||     || | ||||    | ||  |    | | |  |   |    ||  ||||||||||| | |||  | ||||||||||||||||| ||||||||||||||||| |||||| | ||  |||   ||||| | |        
gtacaccacatgtttatggtgcagtctgccttattgattctgattaagatt-tcaatactccatgaacacatctgctatttatgcagGCAGAGAGTGCAGTAGATCAGATGGATTGGATTGAAAAGATAACTGGTGTTATTGCCCCTTTGCTGAACTCACAATCCCCAGAACAG

upper sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM5G872204_T02 (Zea mays), 3'ss of exon 13
gtcattcaaaaaaatttagtgacatgtac--ttgcattttatcattacttctctctctgtctcctcactaaggccaaaata-atgcagGCAGAAAATGCCCTGGATCAGATGGATTGGATGGAAAAGATAACTGGTGTAATTGCCTCCTTATTGAGTGCACAAACACTG------
    |  |  | || ||  ||   |||    ||| || | ||||  |||||  |       || | |  |   |    ||  || |||||||| | |||  | ||||||||||| ||||| ||||||||||||||||| |||||||| ||| ||||  ||||| | |        
---gtatagcacaagtttatggtctgtcatattgaatatgatcaagacttccat----acttcatgaacatatctgctatttatacagGCAGAGAGTGCAGTAGATCAGATGGACTGGATTGAAAAGATAACTGGTGTTATTGCCTCTTTACTGAGCTCACAATCGCCAGAACAG

upper sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 15
lower sequence: AT5G61980.1 (Arabidopsis thaliana), 3'ss of exon 13
---------------------------------------------gtcattcaaaaaaatttagtgacatgtacttgcattttatcattacttctctctctgtctcctcactaaggccaaaataatgcagGCAGAAAATGCCCTGGATCAGATGGATTGGATGGAAAAGATAACTGGTGTAATTGCCTCCTTATTGAGTGCACAAACACTG---------------
                                              |  |||    |   ||  ||| |  |   ||   | |  ||| |   |    |        |   | |   |  | | ||| ||||||| ||||| | |||||||||||| ||||| ||||| |||||||| |||||||| || || ||||||   |||||||                 
gtatgtttccaagtgaaaagatcttcattttcttcaacatattgaatttttcttttaggattcatgatactttggtgttctcttccatcatccccgaatgaccagaattttttaaatcttattgatgtagGCAGAGAATGCACAGGATCAGATGGACTGGATCGAAAAAATAACTGGAGTAATTGCTTCTTTGTTGAGTTTCCAAACACCTGAAAGAGCAATCATG

upper sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv17s0000g00310.t01 (Vitis vinifera), 3'ss of exon 13
------------------------------------------------------------------------------------gtcattcaaaaaaatt---tagtgacatgtacttgcattttatcattactt----ctctctctgtctcctcactaaggccaaaataatgcagGCAGAAAATGCCCTGGATCAGATGGATTGGATGGAAAAGATAACTGGTGTAATTGCCTCCTTATTGAGTGCACAAACACTG------
                                                                                     |||  | ||| | ||    |||   |       | ||| | ||| ||| |    |    ||| ||  ||   ||    ||    |||||||||||| ||||| |||||||| ||||| ||| | |||||||||||||| ||||| || || || |||||| |  |  ||||       
gtacaaaatcaaaggttagatcaaaaatataaatttgggttttcattcatgtttttagactatacttatatgaagctcagcattatcagcccaaatacttgtccagtactaatgctggggattatgtcagtacctagagcagattctctcaactttatattaacacttgaatgcagGCAGAGAATGCACTGGATCAAATGGACTGGGTTGAAAAGATAACTGGAGTAATAGCTTCTTTGTTGAGTTCCGACGCACTTGAAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcattttatcattacttctctctctgtctcctcactaaggccaaaataatgcagGCAGAAAATGCCCTGGATCAGATGGATTGGATGGAAAAGATAACTGGTGTAATTGCCTCCTTATTGAGTGCACAAACACTG
                             tcctcac  putative branch site (score: 2)
     tttatcatta  TA-rich tract