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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtaatgttaatatttccctagtgtaactttggagtggaagtatgctttacattataatttcctggttctgtcttattttatattatctaaagtcttatttatatacctcttggttctttccataaatcttatccatatgcagGTTATTTTGGATGTTGTCTACAATCATACTAATGAGGCTGATGATGCCTTTCCTTACACTACTTCATTTCGTGGCATAGATAATAAG

Basic information

species Glycine max
transcript GLYMA06G10540.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G10540.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os09g29404.1 (Oryza sativa), 3'ss of exon 9
gtagtaatgttaatatttccctagtgtaactttggagtggaagtatgctttacattataatttcctggttctgtcttattttatattatctaaagtcttatttatatacctcttggttctttccataaatcttatccatatgcagGTTATTTTGGATGTTGTCTACAATCATACTAATGAGGCTGATGATGCCTTTCCTTACACTACTTCATTTCGTGGCATAGATAATAAG
                         |||  |    | |  |  ||| |    ||  | | ||| ||| |  |   | |||| ||   | |   ||  | |  || |||  |  |||            |||       | ||||||||||| |||||||||| ||||| ||||| |||||||| ||||||||    || || |  ||||| || |||||||| ||||| |||
-------------------------gta--tccaaactcaatatatac----cagcagattttactgatcattgttaatttcatgc-accgccaggataaaatacata--taatggc-----------atcaccattttgtgcagGTTATTCTGGATGTTGTTTACAACCATACAAATGAGGCGGATGATGCTCACCCGTATATGACTTCTTTCCGTGGCATTGATAACAAG

upper sequence: GLYMA06G10540.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G150796_T02 (Zea mays), 3'ss of exon 9
gtagtaatgttaatatttccctagtgtaactttggagtggaagtatgctttacattataatttcctggttctgtcttattttatattatctaaagtcttatttatatacctcttggttctttccataaatcttatccatatgcagGTTATTTTGGATGTTGTCTACAATCATACTAATGAGGCTGATGATGCCTTTCCTTACACTACTTCATTTCGTGGCATAGATAATAAG----------------------------------------------------------------------------------------------------
                                  |  | ||  |    |  |||| |||| |      || || |||     || || |  | | |||| |  | | |    ||  || | |     |||| |||    ||  |||||||||||||||| || ||||| ||||| ||||| ||||||||||     |||||||  ||||| |||||||| || ||||| |||                                                                                                    
----------------------------------gtattgacatcctgtagacataataaatc-----ttatg-cttgaccgatgtttttgataatcttgtccaaaaaatatttaattgtat-----aatcatatttcaat--aggttattttggatgtagtttacaaccatacaaatgaagctgatgatgttaacccttacatgacttcctttcgtggtattgataacaagGTGATTGCAGAATACCTCTTTACTTGCTGTTCTATCATTTAAGTTCCAAGTCCATGGAGAGACTTGTATGATGGGGTGTCATCAATCTCTGGACGAATTT

upper sequence: GLYMA06G10540.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G150796_T01 (Zea mays), 3'ss of exon 9
gtagtaatgttaatatttccctagtgtaactttggagtggaagtatgctttacattataatttcctggttctgtcttattttatattatctaaagtcttatttatatacctcttggttctttccataaatcttatccatatgcagGTTATTTTGGATGTTGTCTACAATCATACTAATGAGGCTGATGATGCCTTTCCTTACACTACTTCATTTCGTGGCATAGATAATAAG
                                  |  | ||  |    |  |||| |||| |      || || |||     || || |  | | |||| |  | | |    ||  || | |     |||| |||    ||  |||||||||||||||| || ||||| ||||| ||||| ||||||||||     |||||||  ||||| |||||||| || ||||| |||
----------------------------------gtattgacatcctgtagacataataaatc-----ttatg-cttgaccgatgtttttgataatcttgtccaaaaaatatttaattgtat-----aatcatatttcaat--agGTTATTTTGGATGTAGTTTACAACCATACAAATGAAGCTGATGATGTTAACCCTTACATGACTTCCTTTCGTGGTATTGATAACAAG

upper sequence: GLYMA06G10540.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G385578_T01 (Zea mays), 3'ss of exon 7
gtagtaatgttaatatttccctagtgtaactttggagtggaagtatgctttacattataatttcctggttctgtcttattttatatta--tctaaagtcttatttatatacctcttggttctttccataaatcttatccatatgcagGTTATTTTGGATGTTGTCTACAATCATACTAATGAGGCTGATGATGCCTTTCCTTACACTACTTCATTTCGTGGCATAGATAATAAG
                                          ||||     |   | ||   |  ||  ||| | || ||    |||   |||||   | || |   | |  | ||   |  ||| ||||   |  | ||     |||||||| ||||||| || ||||| ||||| ||||| |||||||||||    |||||||  ||||| ||||||||| | ||||| |||
------------------------------------------gtat-tgacatcctgtagaatgatgaatct-ttttcttcagcattgtttctaataccctagtccaaaaaatatt---taattctataatgatgtttca---atagGTTATTCTGGATGTAGTTTACAACCATACAAATGAAGCTGATGATGCTAACCCTTACATGACTTCCTTTCGTGGCCTTGATAACAAG

upper sequence: GLYMA06G10540.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0001g06520.t01 (Vitis vinifera), 3'ss of exon 9
gtagtaatgttaatatttccctagtgtaactttggagtggaagtatg-ctttacattataatttcctggttctgtcttattttatattatctaaagtcttatttatatacctcttggttctttccataaatcttatccatatgcagGTTATTTTGGATGTTGTCTACAATCATACTAATGAGGCTGATGATGCCTTTCCTTACACTACTTCATTTCGTGGCATAGATAATAAG
                                            ||| | ||||  | |  |||  |    || | ||    | | || |  | ||||| |   ||     |  |  |  | |    | || ||| || | | ||||| ||||| |||||||| || || ||||||||||||||||||||||     |||||||| |||||||||||||||||||||||||||
-------------------------------------------catggccttactctttggtttggtttccctatttttcactttcttcttgacagtctgaa--atgctttttattatggtataatgacattttaccctt-tacagGTCATTTTAGATGTTGTTTATAACCATACTAATGAGGCTGATGATGAAAACCCTTACACCACTTCATTTCGTGGCATAGATAATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaagtcttatttatatacctcttggttctttccataaatcttatccatatgcagGTTATTTTGGATGTTGTCTACAATCATACTAATGAGGCTGATGATGCCTTTCCTTACACTACTTCATTTCGTGGCATAGATAATAAG
 atctaaa  putative branch site (score: 3)
                                       tcttatcc  putative PPT
     tcttatttatata  TA-rich tract