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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gacattatccaaatggaaataatgtagtatatttctgacgttgagctcgtggatctctgtaaatttagactgattgaattccttcacattgcctcttcagGAGGTTGATCCATGCGAGGACTTGACAGATGATGATATTCGGACTGCAATTCAGAATGCAACTGGTCCAAGATCTGCATTATTTGTTCCAGAT

Basic information

species Arabidopsis thaliana
transcript AT4G33650.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G33650.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA08G07160.1 (Glycine max), 3'ss of exon 9
gacattatccaaatggaaataatg-tagtatatttctgacgttgagctcgtggatctctgtaaatttagactgattgaattccttcacattgcctctt-cagGAGGTTGATCCATGCGAGGACTTGACAGATGATGATATTCGGACTGCAATTCAGAATGCAACTGGTCCAAGATCTGCATTATTTGTTCCAGAT
  || |      |   |   |||| |  | |   ||||    |    ||   | |  ||    | |   | | ||  ||| |  | | |||   |||  |||||||| ||||||||||| || ||||| |||||||||||||| || || || |||||||||||||| || | ||| ||| | |||||||| || 
-tcactccattgaaccacccaatgatcatgttgctctgttcatttcttcaatgctagctcctgagtcctatt-atataatgcaattaaattttatctaacagGAGGTGGATCCATGCGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCAACTGGACCTAAATCAGCACTGTTTGTTCCTGAA

upper sequence: AT4G33650.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 9
gacattatccaaatggaaataatg-tagtatatttctgacgttgagctcgtggatctctgtaaatttagactgattgaattccttcacattgcctctt-cagGAGGTTGATCCATGCGAGGACTTGACAGATGATGATATTCGGACTGCAATTCAGAATGCAACTGGTCCAAGATCTGCATTATTTGTTCCAGAT
  || |      |   |   |||| |  | |   ||||    |    ||   | |  ||    | |   | | ||  ||| |  | | |||   |||| |||||||| |||||||| || || ||||| |||||||||||||| || || || |||||||| ||||| || | ||| ||| | ||||||||||| 
-tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtcctatt-atataatgcaataaaattttatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA

upper sequence: AT4G33650.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
gacattatccaaatggaaataatgtagta-tatttctgacgttg---agctcgtggatctctgtaaatttagactgattgaattccttcacattgcctcttcagGAGGTTGATCCATGCGAGGACTTGACAGATGATGATATTCGGACTGCAATTCAGAATGCAACTGGTCCAAGATCTGCATTATTTGTTCCAGAT
   ||     |  |   |||  | || |  ||  ||||| |||    |  |   |     || | |  | |    |  |||     ||   | |  || | |||||||| |||||||| ||||| ||||| |||||||| ||||| |||||||||||||||||||| || || ||||||||||||||||| ||||| 
---atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttg-aatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA

upper sequence: AT4G33650.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: EFJ15047 (Selaginella moellendorffii), 3'ss of exon 9
gacattatccaaatggaaataatgtagtatatttctgacgttgagctcgtggatctctgtaaatttagactgattgaattccttcacattgcctcttcagGAGGTTGATCCATGCGAGGACTTGACAGATGATGATATTCGGACTGCAATTCAGAATGCAACTGGTCCAAGATCTGCATTATTTGTTCCAGAT
                                                |||  | | | ||  |||    | ||         | |||||   ||| ||||||||||||||||| || ||  |||| ||||| ||||| || || || ||||| ||||| |||||||||| |  ||   | ||||| || || 
------------------------------------------------gtgcgttttt-tagttttg---ttatacgtccttctaacatt-tttctacagGAGGTTGATCCATGTGATGATCTGACTGATGAAGATATACGAACAGCCATTCAAAATGCCACTGGTCCAAAAAATGTTCTGTTTGTGCCCGAG

upper sequence: AT4G33650.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: EFJ37641 (Selaginella moellendorffii), 3'ss of exon 9
gacattatccaaatggaaataatgtagtatatttctgacgttgagctcgtggatctctgtaaatttagactgattgaattccttcacattgcctcttcagGAGGTTGATCCATGCGAGGACTTGACAGATGATGATATTCGGACTGCAATTCAGAATGCAACTGGTCCAAGATCTGCATTATTTGTTCCAGAT
                                                |||  | | | ||  |||    | ||         | |||||   ||| ||||||||||||||||| || ||  |||| ||||| ||||| || || || ||||| ||||| |||||||||| |  ||   | ||||| || || 
------------------------------------------------gtgcgttttt-tagttttg---ttatacgtccttctaacatt-tttctacagGAGGTTGATCCATGTGACGATCTGACTGATGAAGATATCCGAACAGCCATTCAAAATGCCACTGGTCCAAAAAATGTTCTGTTTGTGCCCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcgtggatctctgtaaatttagactgattgaattccttcacattgcctcttcagGAGGTTGATCCATGCGAGGACTTGACAGATGATGATATTCGGACTGCAATTCAGAATGCAACTGGTCCAAGATCTGCATTATTTGTTCCAGAT
                      gactgat  putative branch site (score: 3)
                                           ttgcctcttc  putative PPT
            tgtaaattta  TA-rich tract