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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattgagattattttttattcaagaagatttaaatggctttaaggcacatctgagttactaatgtgcaaatgtgatgaatcatgaaatgacaaatcatatctgttcttttggtgtcatggtcatctgttgattttgtttattgtcttgtagGTGCTCAAAATGTGGGAGGGATTCCGAAGCTTCGTCAAAGATGGAGGATTTTTATGCCCTTGAGTTGAATGTTAAGGGCCTCAAATCGTTGGATGCTAGT

Basic information

species Arabidopsis thaliana
transcript AT3G49600.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G49600.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os03g09260.1 (Oryza sativa), 3'ss of exon 3
gtaagattgagattattttttattcaagaagatttaaatggctttaaggcacatctgagttactaatgtgcaaatgtgatgaatcatgaaatgac-aaatcatatctgttcttttggtgtcatggtcatctgttgattttgtttattgtcttgtagGTGCTCAAAATGTGGGAGGGATTCCGAAGCTTCGTCAAAGATGGAGGATTTTTATGCCCTTGAGTTGAATGTTAAGGGCCTCAAATCGTTGGATGCTAGT
                                                 |||||     |  |     |||| |||| |      |||| ||    |  |||||   || | |||  | |   |   | |||  | || |   |  | |  | ||||||||||  |||||| |||||||||||||| || ||||||||||| || ||||| |  || ||| | ||  |||| ||  | ||     | ||    |||
-------------------------------------------------cacattcacatagcc----tgcagatgttaaagggaatgatatacttagttcata---gtacatttaattttgcgtagagctgaagtttattcatcctatgctttagGTGCTCATCATGTGGAAGGGATTCCGAAGCATCTTCAAAGATGGAAGACTTTTACGAACTGGAGCTTAACATTAAAGGTTTAAATAATCTAGAACAAAGT

upper sequence: AT3G49600.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv04s0008g03170.t01 (Vitis vinifera), 3'ss of exon 2
gtaagattgagattattttttattcaagaagatttaaatggctttaaggcacatctgagttacta-atgtgcaaatgtgatga-atcatgaaatgacaaatcatatctgttcttttggt-gtcatggtcatctgttgattttgtttattgtcttgtagGTGCTCAAAATGTGGGAGGGATTCCGAAGCTTCGTCAAAGATGGAGGATTTTTATGCCCTTGAGTTGAATGTTAAGGGCCTCAAATCGTTGGATGCTAGT
                                                       | | ||  ||  | |  | ||||  | |  ||||    |   | ||  |   |||       |  |   |     |  ||   | || |||     | ||||||||||||||||| || |  ||||| |||||||| || || ||||| ||||||||||  || ||||||||||| |||||  | |||   || || |  |||
------------------------------------------------------gttacttgttacgtatttagatgttttaatgtcat----ttttatattttccttgtctggaaagaagatttaagttttagtcattcttctttggaaacatgtagGTGCTCAAAATGCGGAAAAGATTCTGAAGCTTCCTCGAATATGGAAGATTTTTATGAACTGGAGTTGAATGTCAAGGGTTTGAAAAGTTTAGACGAGAGT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatctgttcttttggtgtcatggtcatctgttgattttgtttattgtcttgtagGTGCTCAAAATGTGGGAGGGATTCCGAAGCTTCGTCAAAGATGGAGGATTTTTATGCCCTTGAGTTGAATGTTAAGGGCCTCAAATCGTTGGATGCTAGT
                             tgttgat  putative branch site (score: 4)
                                            ttgtctt  putative PPT
                               ttgattttgtttatt  TA-rich tract