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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtttataattgaatttggatcatgtagaaaatgtttatatgtctatttatacagttttttgtattgatattaacttgtatggaaaatattttcagGGGTACAGTCCGCTATGCTAGTGTGCATGCACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTT

Basic information

species Glycine max
transcript GLYMA07G01890.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g10150.2 (Oryza sativa), 3'ss of exon 8
gtgtttataattgaatttggatcatgtagaaaatgt-ttat-atgtctat--ttatacagttttttgtattgata---ttaacttgtatggaaaatatttt---cagGGGTACAGTCCGCTATGCTAGTGTGCATGCACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTT
                   | |    |||||| | | |||  ||| ||||  || | ||  ||  | |||||||    |   | ||| ||     || | |   ||||||||| || || ||||||||||||||||| || || || ||||||| | ||||||| |||||| | ||||| |||||||| ||||| ||||| ||||| 
-------------------gtttgaatagaaagtttattacgatgcctatcattttgcacattactttattgatgcgctcttcctgtttgtctgctactgtaaacagGGGTACTGTTCGTTATGCTAGTGTGCATGCCCACTTGGGAAGAACTGGATGCAGGAGAGATGACCTTGAATCCCTTGCATACACACTTATTTTCCTTCTC

upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g54100.2 (Oryza sativa), 3'ss of exon 7
------gtgtttataattgaatttggatcatgtagaaaatgtttatatgtctatttatacagttttttgtattgatattaacttgtatggaaaatattttcagGGGTACAGTCCGCTATGCTAGTGTGCATGCACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTT
      | |     | ||   | | ||      |   | | || || | | ||    || ||    |   | | |   |  ||||  |         ||||||||| ||||| |||||||||||||| ||||||||| |||||||||  |  ||| | |||||||| || |||||||| || || |||||  |||||||||| 
gaaatagagccctaatttctgtcttgaatgccaactcattcttcatgt-tgtaggcttatagcaaatc--agtaactctgccttgcttttgctgctatttcagGGGGACAGTTCGCTATGCTAGTGTTCATGCACATCTAGGGAGAATCGGTAGCCGAAGGGATGATTTAGAATCTCTAGCTTACACACTAGTTTTTCTTCTA

upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g11140.1 (Oryza sativa), 3'ss of exon 8
gtgtttataattgaatttggatcatgtagaaaatgtttatatgtctatttatacagttttttgtattgatattaacttgt-atggaaaatattttca--gGGGTACAGTCCGCTATGCTAGTGTGCATGCACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTT
  |||| | |  ||  |    |  || | |  | ||    | | |      |    | | ||      | | | |||||| ||    | ||  |  |  |||| || || |||||||||||||||||||| || ||||| ||||||| |||||| || |||||  | ||||| ||||| ||||||||  |||||||| | 
--gtttgtgagggagatactttattgaaaactaagtcctaaagccctcgattttcttgtgttactaataaactgacttgtcatactgattacctgaaaagGGGAACTGTTCGCTATGCTAGTGTGCATGCTCACTTAGGAAGAACTGGAAGCAGAAGAGATGATCTTGAATCCCTTGCCTATACACTTGTTTTTCTTTTA

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

upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G116151_T03 (Zea mays), 3'ss of exon 8
gtgtttataattgaatt--tggatcatgtagaaaatgtttatatgtctatttatacagttttttgtattgatattaacttgtatggaaaatatttt-------cagGGGTACAGTCCGCTATGCTAGTGTGCATGCACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTT
  ||||  ||| ||| |  |  |  | ||   |  | |  |    | ||||    |    || | |  | | |||   |   ||  |  |   |||       ||| || || || || |||||||| |||||||| ||||| |||||||||| |||||||||||||||| | ||||||||||| || |||||  | |||||||| 
--gtttgcaatagaaatacttcactaggttttatct-tccaaggctttattctcccctacttctatgcttacattttttgtcatacatcactgtttaatggaacagAGGAACTGTTCGGTATGCTAGCGTGCATGCTCATTTGGGGAGAACTGGAAGCAGGAGGGATGACCTTGAATCTCTTGCCTACACACTTGTATTTCTTCTG

upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G158177_T01 (Zea mays), 3'ss of exon 1
gtgtttataattgaatttggatcatgtagaaaatgtttatatgtctatttatacagtttt-ttgtattgatattaac--ttgtatggaaaatattttcagGGGTACAGTCCGCTATGCTAGTGTGCATGCACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTT
          ||   || |||  ||       ||||     |  ||| | | |   |||  ||| | |  | || ||  ||||||       ||   |||||| || || |||||||||||||||||||| || || || |||||||  || ||||| |||||  | ||||| |||||||| || || ||||||||||| 
---------gttcgtttgggaatattagtttgatgt--gctttactactcacattatttcattggaatacttttgacatttgtatttgcttcataaacagGGGAACTGTTCGCTATGCTAGTGTGCATGCTCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTTGCATACACGCTTATTTTTCTTCTA

upper sequence: GLYMA07G01890.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 3'ss of exon 8
---------------gtgtttataattgaatttg--gatcatgtagaaaatgtttatatgtctatttat-acagtttt----ttgtattgatattaacttgtatggaaa----atattttcagGGGTACAGTCCGCTATGCTAGTGTGCATGCACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTT
                |||    |  || | |||    || |||      |||||    |  |     | || |||||     ||   |    ||   || | || ||      ||  | ||| || || || |||||||| ||||||||||||||||| || || ||||  || |||||||| ||||||||||| || || || ||  || | || ||||| 
gtgaggttcttccccctgtcctgatctgtagttgccattcctgttttggctgttttggcggttgggagtgactgttttgcccctgagctatattttgattctgtgtaatttccgtacatgcagTGGAACTGTTCGCTATGCAAGTGTGCATGCACATTTGGGAAGGACTGGGAGTAGGAGGGACGACTTGGAATCACTGGCTTACACTTTGGTATTCCTTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctatttatacagttttttgtattgatattaacttgtatggaaaatattttcagGGGTACAGTCCGCTATGCTAGTGTGCATGCACATTTAGGGAGAACTGCAAGCAGGAGGGATGACTTGGAATCTCTTGCATATACACTGATTTTTCTTCTT
                           tattaac  putative branch site (score: 1)
                                              tattttc  putative PPT
     tttatacagttttttg  TA-rich tract