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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtaaaaacatattttccaactttctctttttttttttctgaaaagcagaattgtaatcataagtttactggtaatttctcaaatgcatcttgatgaattctgatgttttttatatattttgtgtgtagGTATAGTCCATTCCTTATGGCCTGCTTCAACCCTGAGACTGAAGAATTCCAGAGTGTCTGCCGTGTCATGTCTGGTTTTTCTGATGCCTTTTACATCGAG

Basic information

species Arabidopsis thaliana
transcript AT1G66730.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G66730.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: LOC_Os01g49180.1 (Oryza sativa), 3'ss of exon 17
gtagtaaaaacatattttccaactttctctttttttttttctgaaaagcagaattgtaatcataagtttactggtaatttctcaa-atgcatcttgatg-aattctgatgttttttatatattttgtgtgtagGTATAGTCCATTCCTTATGGCCTGCTTCAACCCTGAGACTGAAGAATTCCAGAGTGTCTGCCGTGTCATGTCTGGTTTTTCTGATGCCTTTTACATCGAG
                                          | |     |  |  |   ||||      ||  |     || |  || | |||||    ||| ||  | | || | || ||||       |||||||| || || |||||||| |||| |||||||||    ||||| ||||| ||||||||||| || ||||||||||| || ||||  || || |  |||
------------------------------------------gtacgtttggttcctgtgcatataacctctcttttccccttaccatacttcttgccccaatgctcttctcttctctacattt-----acagGTATAGCCCTTTTCTTATGGCGTGCTACAACCCTGAATACGAAGAGTTCCAAAGTGTCTGCCGCGTTATGTCTGGTTTCTCAGATGAGTTCTATAAAGAG

upper sequence: AT1G66730.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv14s0006g02210.t01 (Vitis vinifera), 3'ss of exon 10
gtagtaaaaacatattttccaactttctctttttttttttctgaaaagcagaattgtaatcataagtttactggtaatttctcaaatgcatcttgatgaattctgatgttttttatatattttgtgtgt-agGTATAGTCCATTCCTTATGGCCTGCTTCAACCCTGAGACTGAAGAATTCCAGAGTGTCTGCCGTGTCATGTCTGGTTTTTCTGATGCCTTTTACATCGAG
                      ||||   |||    |  |   ||| |     ||   ||   || |   ||| |  ||     | |||   | |     || |||| | |     || ||   ||| | ||||||||||||||||| ||||| || | ||||||||| || || |||||||| ||||| || ||||||||||| || || || |||   || ||||  |||
----------------------cttttaatttgaggtgcttccaaatgt----ttcccatgtgaaatcctctgtt--ttgaagtactgccgttaggcatgttttgatatgt----gatcttccatgtttcagGTATAGTCCATTCCTCATGGCTTGTTACAACCCTGACACAGAGGAATTCCAAAGTGTATGTCGTGTCATGTCAGGGTTCTCAGATAATTTCTACAAAGAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctcaaatgcatcttgatgaattctgatgttttttatatattttgtgtgtagGTATAGTCCATTCCTTATGGCCTGCTTCAACCCTGAGACTGAAGAATTCCAGAGTGTCTGCCGTGTCATGTCTGGTTTTTCTGATGCCTTTTACATCGAG
                        ttctgat  putative branch site (score: 3)
                   atgaattctgatgttt  TA-rich tract