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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctcttgtattgatagtttgtactgatgtggtaaacaaaattgccaattcttgtgcttgcatcatttgataactaatttctttatttttccttttcctttatgtgttgactgcaggatcttgttggtttagtaatctcaatgctgcttctaggagattttagtttagtattacttaccttgcttcagTTGTATTCAATTTCTTTGGTGGATGTCTTCCTTGTGTTGTTTATATTACCTTTCGGCATTCTTCTCCCATTTCCTGTCGGAATTAATGCTCTCTTTAGTC

Basic information

species Glycine max
transcript GLYMA06G09360.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G09360.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os01g09246.1 (Oryza sativa), 3'ss of exon 19
gtatctcttgtattgatagtttgtactgatgtggtaaacaaaattgccaattcttgtg-cttgcatcatttgataactaatttctttatttttccttttcctttatgtgttgactgcaggatcttgttggtttagtaatctcaatgctgcttctaggagattttagtttagtattacttaccttgcttcagTTGTATTCAATTTCTTTGGTGGATGTCTTCCTTGTGTTGTTTATATTACCTTTCGGCATTCTTCTCCCATTTCCTGTCGGAATTAATGCTCTCTTTAGTC
                                | |   |         | | | |  | ||   || ||   ||  ||    | |  | ||  | |  | || |   | || | |||||||||||||||| ||||||||||||||  ||||||| | ||||||||| ||||| ||||| || || || ||| | ||||||   ||| |||  |||||                                                                          
--------------------------------gtttttctctgccattattacataagactcttatgataaaattcctggcatttgcacttaccataattctcttgttcttaaatgcagGATCTTGTTGGCTTAGTAATCTCAATATTGCTTCTCGCAGATTTTAGCTTAGTGTTACTGACTTTTCTCCAGCTATATTCATACTCTATGGCCGATGTTC------------------------------------------------------------------------

upper sequence: GLYMA06G09360.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os05g09360.1 (Oryza sativa), 3'ss of exon 17
gtatctcttgtattgatagtttgtactgatgtggtaaacaaaattgccaattcttgtgcttgcatcatttgataactaatttctttatttttccttttcctttatgtgttgactgcaggatcttgttggtttagtaatctcaatgctgcttctaggagattttagtttagtattacttaccttgcttcagTTGTATTCAATTTCTTTGGTGGATGTCTTCCTTGTGTTGTTTATATTACCTTTCGGCATTCTTCTCCCATTTCCTGTCGGAATTAATGCTCTCTTTAGTC
        || | |   | |||| || | | |  | | ||  ||||| |   || ||      || ||      ||  | |  |  | ||  |    | |||| | | |   |||||||||||||||||||| || ||||| ||  ||||||| | |||||| || |||||||| ||||| || || ||| | ||||||  |||| || | ||||| |                                                                        
-------gtg-acttccattttgcacagctatcctga-catcattgcaacccctagtttggttatgatggatctacacaatcttgaacttaccaaggttctttttctttc--ctgcagGATCTTGTTGGTTTGGTGATCTCTATATTGCTTCTTGCAGATTTCAGCTTAGTATTGCTTACTTTTCTCCAGCTATATTCATATTCTATGATCGATGTGT------------------------------------------------------------------------

upper sequence: GLYMA06G09360.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G412234_T01 (Zea mays), 3'ss of exon 9
gtatctcttgtattgatagtttgtactgatgtggtaaacaaaattgccaattcttgtgcttgcatcatttgataactaatttctttatttttccttttcctttatgtgttgactgcaggatcttgttggtttagtaatctcaatgctgcttctaggagattttagtttagtattacttaccttgcttcagTTGTATTCAATTTCTTTGGTGGATGTCTTCCTTGTGTTGTTTATATTACCTTTCGGCATTCTTCTCCCATTTCCTGTCGGAATTAATGCTCTCTTTAGTC
            |   |   |   |||| |   ||  ||| | |    |     ||     |  ||||||  |    |||        |  || |  | || |     || ||||||||||||||||||||| ||||||||||| |||||||| | |||||| || ||||| || ||||| || || ||| ||||||||  |||| |||| |||||                                                                          
-----------gtctttctctgccactgttactgtccacagagtgatta-----tgaatcagt-tcattttgtgctgaat------gctgatcttggttctgttgaacttaactgcagGATCTTGTTGGTTTGGTAATCTCAATACTGCTTCTTGCAGATTTCAGCTTAGTTTTGCTTACTTTTCTCCAGCTGTATTCATATTCTATGGTCGATGTTC------------------------------------------------------------------------

upper sequence: GLYMA06G09360.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM5G820781_T01 (Zea mays), 3'ss of exon 4
gtatctcttgtattgatagtttgtactgatgtggtaaacaaaattgccaattcttgtgcttgcatcatttgataactaatttctttatttt-tccttttcct--ttatgtg-ttgactgcaggatcttgttggtttagtaatctcaatgctgcttctaggagattttagtttagtattacttaccttgcttcagTTGTATTCAATTTCTTTGGTGGATGTCTTCCTTGTGTTGTTTATATTACCTTTCGGCATTCTTCTCCCATTTCCTGTCGGAATTAATGCTCTCTTTAGTC
                                            ||||| |  |  ||    ||  ||   || | |||| |||| ||||| | ||  || |  || |||  || ||||||||||||||||||| | ||||||||||| |||||||| | |||||| || ||||| || ||||| || || ||| |||||||   |||| |||| |||||                                                                          
-----------------------------------gtctttctctgccattgttcctgtccacagaat--aattattaatctcttcattttgtgctgatcttggttctgttcttaactgcagGATCTTGTTGGTCTGGTAATCTCAATACTGCTTCTTGCAGATTTCAGCTTAGTTTTGCTTACTTTTCTCCAGCTGTATTCGTATTCTATGGTCGATGTTC------------------------------------------------------------------------

upper sequence: GLYMA06G09360.1 (Glycine max), 3'ss of exon 19
lower sequence: AT5G11700.1 (Arabidopsis thaliana), 3'ss of exon 19
gtatctcttgtattgat--agtttgtactgatgtggtaaacaaa-attgccaattcttgtgc--ttgcatcatttgataactaatttctttatttttccttttcctttatgtgttgactgcaggatcttgttggtttagtaatctcaatgctgcttctaggagattttagtttagtattacttaccttgcttcagTTGTATTCAATTTCTTTGGTGGATGTCTTCCTTGTGTTGTTTATATTACCTTTCGGCATTCTTCTCCCATTTCCTGTCGGAATTAATGCTCTCTTTAGTC
         |||   |   | |    |    | |||||   |   |||   || | |||||   ||  |   ||  | || |    | | | ||    || ||    | | || | | |||||||| | ||||| ||||| ||||| ||| | ||| |||||||||||||| |||| || || ||  | || ||| ||||||| ||||||||| |||||||                                                                          
---------gtacgaacccaatcaaaatctttatggtatgaatgtattcttaaatgttgtgacgttcaacttttctagaattttaatgtctcttccctctgttatcgtctttggt-attgcagGATATGGTTGGCTTAGTTATCTCGATGTTACTTTTAGGAGATTTTAGTCTAGTCTTGCTCACACTCCTCCAGCTGTATTCGATTTCTTTGCTGGATGTAC------------------------------------------------------------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctcaatgctgcttctaggagattttagtttagtattacttaccttgcttcagTTGTATTCAATTTCTTTGGTGGATGTCTTCCTTGTGTTGTTTATATTACCTTTCGGCATTCTTCTCCCATTTCCTGTCGGAATTAATGCTCTCTTTAGTC
                                      tacttac  putative branch site (score: 1)
                                            ccttgcttc  CT-rich tract
                       attttagtttagtatt  TA-rich tract