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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaaccaaatatctcctagaagagccaatccagcttaatgtttatcattatctgcctagatagctatgctattttcatattctgatgaaactagtgcttaaatgttagccaatgaaatacattttcagATGTCTGGCTCCTCTGCTCTCCCTCGACCTGTCATGCATCAATGGGAAAGTATCACAGGTCATCGTCTTTTGGAAAGATATGGCATGACTGAG

Basic information

species Arabidopsis thaliana
transcript AT3G16170.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G16170.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os01g55590.1 (Oryza sativa), 3'ss of exon 9
gtaagcaaccaaatatctcctagaagagccaatccagcttaatgtttatcattatctgcctagatagctatgctattttcatattctgatgaaactagtgcttaaatgttagccaatgaaat-------acattttcagATGTCTGGCTCCTCTGCTCTCCCTCGACCTGTCATGCATCAATGGGAAAGTATCACAGGTCATCGTCTTTTGGAAAGATATGGCATGACTGAG
                                       || | |||  | || |  || |   ||   |   |  |    |   |||||| || || |   ||||| || |  | | | ||       ||   | ||||||| ||| || || || || |||   ||  | ||| | |  |||||     | |||||||| |||||||||||| |||| ||||||||||||
--------------------------------------gtattctttggc-ttgtaggctttattaagcactatcataatgtggactgatgtaattattatctaaatttttgttattaacattatatgaactggtgcagATGTGTGGATCATCGGCCCTTCCTTCCCCACTTATGAAACGGTGGGAGGAAGTGACAGGTCACCGTCTTTTGGAACGATACGGCATGACTGAG

upper sequence: AT3G16170.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv09s0002g04170.t01 (Vitis vinifera), 3'ss of exon 9
gtaagcaaccaaatatctcctagaagagccaatccagcttaatgtttatcattatctgcctagatagctatgctattttcatattctgatgaaactagtgcttaaatgttagccaatgaaatacattttcagATGTCTGGCTCCTCTGCTCTCCCTCGACCTGTCATGCATCAATGGGAAAGTATCACAGGTCATCGTCTTTTGGAAAGATATGGCATGACTGAG
                 |  |  || |    ||| |   ||||  ||    |  ||  |||   |||| |  | | ||    |  ||| | | | | ||| |||||  ||      |    ||| |||| |||||| |||||||||||| || ||    ||||||||||| |||||||||| ||||||||| ||||||||||||||  ||||||| |||||||||
-----------------ttttgcaaaattttatcta---taattcttcctctgttc--cctg--tagcaaaaccagttgatga--ctgctcagatt-gtgattaaaaattgttttct----tac-tttttagATGTGTGGCTCCTCTGCGCTTCCCTATCCTGTCATGCAACAATGGGAAACTATCACAGGACATCGTCTTTTGGAGCGATATGGAATGACTGAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatattctgatgaaactagtgcttaaatgttagccaatgaaatacattttcagATGTCTGGCTCCTCTGCTCTCCCTCGACCTGTCATGCATCAATGGGAAAGTATCACAGGTCATCGTCTTTTGGAAAGATATGGCATGACTGAG
      ttctgat  putative branch site (score: 3)
                                              cattttc  putative PPT
                                     aatgaaatacatttt  TA-rich tract