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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatggtagtagccattctttaactggacatggaatcagtctcttagtctctgttgagatggtacactaaacatattgtcacagtagctagtaaagctgtggtgcttatgcttcttatagttgaatcaaatgaaggagatactagtcttactgttatgatacactgttactgctgctgtttcagGGGAACATTTCGCTATGCTAGTGTTCATGCACATCTTGGGAGAACAGGTAGCAGGAGGGATGATTTAGAATCTCTAGCATATACACTAGTCTTTCTTCTA

Basic information

species Zea mays
transcript GRMZM2G095634_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095634_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g54100.2 (Oryza sativa), 3'ss of exon 7
gtatgcatggtagtagccattctttaactggacatggaatcagtctcttagtctctgttgagatggtacactaaacatattgtcacagtagctagtaaagctgtggtgcttatgcttcttatagttgaatcaaatgaaggagatactagtcttactgttatgatacactgttactgctgctgtttcagGGGAACATTTCGCTATGCTAGTGTTCATGCACATCTTGGGAGAACAGGTAGCAGGAGGGATGATTTAGAATCTCTAGCATATACACTAGTCTTTCTTCTA
                                                                          | |||  | |  | |  ||        ||     || || |||| | | || |  | | |  ||      |  |||    |||           || |  ||||||| ||||||||| ||| |||||||||||||||||||||||||||| |||||||  |||||| | ||||||||||||||||||||||| || |||||||| |||||||||
-------------------------------------------------------------------------gaaatagagccctaatttctgtcttgaatgcca-actcattcttcatgttgtaggcttatagcaa------atcagtaactctgcc--------ttgcttttgctgctatttcagGGGGACAGTTCGCTATGCTAGTGTTCATGCACATCTAGGGAGAATCGGTAGCCGAAGGGATGATTTAGAATCTCTAGCTTACACACTAGTTTTTCTTCTA

upper sequence: GRMZM2G095634_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA04G09070.1 (Glycine max), 3'ss of exon 8
gtatgcatggtagtagccattctttaactggacatggaatcagtctcttagtctctgttgagatggtacactaaacatattgtcacagtagctagtaaagctgtggtgcttatgcttcttatagttgaatcaaatgaaggagatactagtctt-actgttatgatacactgttactgctgctgtttcagGGGAACATTTCGCTATGCTAGTGTTCATGCACATCTTGGGAGAACAGGTAGCAGGAGGGATGATTTAGAATCTCTAGCATATACACTAGTCTTTCTTCTA
                                                                                                      ||      | |||||  |||   | ||     |     |  | |  || || | || | |  || ||| |   | ||  ||   |||||| ||| |||| |||||||| || ||||| |||||||| ||||||||||| ||||| ||||| ||||||||||| || || || || ||||||||||| 
------------------------------------------------------------------------------------------------------gtaaattatttgcttaatatctataaactg--tagtaaacgtccaggttttgaatgattttgtaaactat--atact--tgccacagGGGCACAGTTCGTTATGCTAGCGTGCATGCTCATCTTGGTAGAACAGGTAGTAGGAGAGATGACTTAGAATCTCTTGCTTACACTCTTGTCTTTCTTCTT

upper sequence: GRMZM2G095634_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA06G09190.1 (Glycine max), 3'ss of exon 8
gtatgcatggtagtagccattctttaactggacatggaatcagtctcttagtctctgttgagatggtacactaaacatattgtcacagtagctagtaaagctgtggtgcttatgcttcttatagttgaatcaaatgaaggagatactagtctt-actgttatgatacactgttactgctgctgtttcagGGGAACATTTCGCTATGCTAGTGTTCATGCACATCTTGGGAGAACAGGTAGCAGGAGGGATGATTTAGAATCTCTAGCATATACACTAGTCTTTCTTCTA
                                                                                                      ||      | ||||   |||   | ||     |     |  | |  || || | || | |  || |||||      |  ||   |||||| ||| |||| ||||||||||| ||||| ||||||||  |||||||||||||||| ||||| || |||||||| || || || || ||||||||||| 
------------------------------------------------------------------------------------------------------gtaaattatttgctaaatatctataaactg--tagtcaacgtccaggttttgaatgattttgtaaactgt----attcttgccacagGGGCACAGTTCGTTATGCTAGTGTGCATGCTCATCTTGGTCGAACAGGTAGCAGGAGAGATGACTTGGAATCTCTTGCTTACACTCTTGTCTTTCTTCTT

upper sequence: GRMZM2G095634_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 8
gtatgcatggtagtagccattctttaactggacatggaatcagtctcttagtctctgttgagatggtacactaaacatattgtcacagtagctagtaaagctgtggtgcttatgcttcttatagttgaatcaaatgaaggagatactagtcttactgttatgatacactgttactgctgctgtttcagGGGAACATTTCGCTATGCTAGTGTTCATGCACATCTTGGGAGAACAGGTAGCAGGAGGGATGATTTAGAATCTCTAGCATATACACTAGTCTTTCTTCTA
                                                                                       ||   || |  |  | |||  | | |      | |   |   || | | |   || |  | || ||  | |||   |  |  |  | |  |     |||||||| ||| | |||||||||||||| ||||||||| | |||||||| |  |||||||||||||| || |||||||| |||||||||||  | |||||||| 
-------------------------------------------------------------------------------------gtgtttataattgaatt-tggatcatgtagaaaatgtttatatgtctatttatacagttttttgtattgatattaacttgtatggaaaatatt-----ttcagGGGTACAGTCCGCTATGCTAGTGTGCATGCACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTT

upper sequence: GRMZM2G095634_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G21570.1 (Glycine max), 3'ss of exon 8
gtatgcatggtagtagccattctttaactggacatggaatcagtctcttagtctctgttgagatggtacactaaacatattgtcacagtagctagtaaagctgtggtgcttatgcttcttatagttgaatcaaatgaaggagatactagtcttactgttatgatacactgttactgctgctgtttcagGGGAACATTTCGCTATGCTAGTGTTCATGCACATCTTGGGAGAACAGGTAGCAGGAGGGATGATTTAGAATCTCTAGCATATACACTAGTCTTTCTTCTA
                                                                                      | |    | | ||   |   |   ||       | | | |  | | | | | | || |  | || ||  | |||   |  |  |  | |  |     |||||||| ||| | |||||||||||||| ||||||||| | |||||||| |  |||||||||||||| || |||||||| |||||||||||  | |||||||| 
------------------------------------------------------------------------------------gtatttataattgaaatcggattatgtagaaaa--tgttgatacaactatttatgcagttttttgtattgatattaacctgtatggaaaatatt-----ttcagGGGCACAGTCCGCTATGCTAGTGTGCATGCACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTT

upper sequence: GRMZM2G095634_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA04G09080.1 (Glycine max), 3'ss of exon 8
gtatgcatggtagtagccattctttaactggacatggaatcagtctcttagtctctgttgagatggtacactaaacatattgtcacagtagctagtaaagctgtggtgcttatgcttcttatagttgaatcaaatgaaggagatactagtcttactgttatgatacactgttactgctgctgtttcagGGGAACATTTCGCTATGCTAGTGTTCATGCACATCTTGGGAGAACAGGTAGCAGGAGGGATGATTTAGAATCTCTAGCATATACACTAGTCTTTCTTCTA
                                                                                              |||||    |  |   ||    |||   |  || |   ||||     | ||  |||      | | | ||| ||| |      |  ||   |||||| ||| |||| |||||||| || ||||| |||||||| ||||||||||||||||| ||||| || |||||||| || || || || ||||||||||| 
----------------------------------------------------------------------------------------------gtaaat---tatttgctaaatatctataaactgtagtcaatgtccaggttatgagt------gattttataaactat----attcttgccacagGGGCACAGTTCGTTATGCTAGCGTGCATGCCCATCTTGGTAGAACAGGTAGCAGGAGAGATGACTTGGAATCTCTTGCTTACACTCTTGTCTTTCTTCTT

upper sequence: GRMZM2G095634_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 8
gtatgcatggtagtagccattctttaactggacatggaatcagtctcttagtctctgttgagatggtacactaaacatattgtcacagtagctagtaaagctgtggtgcttatgcttcttatagttgaatcaaatgaaggagatactagtcttactgttatgatacactgttactgctgctgtttcagGGGAACATTTCGCTATGCTAGTGTTCATGCACATCTTGGGAGAACAGGTAGCAGGAGGGATGATTTAGAATCTCTAGCATATACACTAGTCTTTCTTCTA
                                                                       ||||   |       ||||   |       |  | |   |    ||  ||  || | ||    |  |     |  |   ||| ||| ||  |||   |||||       || | |||||||||| | || ||||||||||| ||||| || ||||| || || || ||||| || |||||||| |||||||| || || || ||  | |||||||| 
----------------------------------------------------------------------gtaaaatcagaacttgagtattcaactgccttcagttagcttcattt--taatgtgggattttgtatatccttttgtttacttgctggtacaata---tgtta-------tgctacagGGGAACAGTACGTTATGCTAGTGTGCATGCTCACCTTGGAAGGACTGGAAGCAGAAGAGATGATTTGGAATCTCTTGCTTACACCCTCATTTTTCTTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaaggagatactagtcttactgttatgatacactgttactgctgctgtttcagGGGAACATTTCGCTATGCTAGTGTTCATGCACATCTTGGGAGAACAGGTAGCAGGAGGGATGATTTAGAATCTCTAGCATATACACTAGTCTTTCTTCTA
               gtcttac  putative branch site (score: 3)
                                              ctgtttc  putative PPT
                        ttatgata  TA-rich tract