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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtgtttacatttgaaatatttgtctgttgtgaagaaaaacatgaaatttccttgttgaaagccacctccatatgacatttttccttgtttttccttgcttgtaactgcagatacttttatgtattaactaagtttagtgtaccacagGTTCTTTGCCTTGTCGCCATGGAGAAACCAATCTCTCTTAAACCCGAGCACATCCGGGATGAGAAAGTGAAG

Basic information

species Arabidopsis thaliana
transcript AT3G27300.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA19G24250.3 (Glycine max), 3'ss of exon 9
gcaagtgtttacatttgaaatatttgtctgttgtgaagaaaaacatgaaatttccttgttgaaagccacctccatatgacatttttccttgtttttccttgcttgtaactgcagatacttttatgtattaactaagtttagtgtaccacagGTTCTTTGCCTTGTCGCCATGGAGAAACCAATCTCTCTTAAACCCGAGCACATCCGGGATGAGAAAGTGAAG
                                    | | |||||  ||||      | | || |  |  |||||   |   ||         ||  |   ||  ||  ||   |       || | |||| ||  |||     | | |||||||||||| | || || ||||| |||||| | ||||| |  || |||||||| ||||||||||||||||||
------------------------------------aaacaaacaccaaat------gcttaatgtta--tccattaaatggttcattagacattatcagcctaatatatgtcaa-------atttgttaattatttttctaccaactcagGTTCTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAGGCCTGAGCACATTCGGGATGAGAAAGTGAAG

upper sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 9
gcaagtgtttacatttgaaatatttgtctgttgtgaagaaaaacatgaaatttccttgttgaaagccacctccatatgacatttttccttgtttttccttgcttgtaactgcagatacttttatgtattaactaagtttagtgtaccacagGTTCTTTGCCTTGTCGCCATGGAGAAACCAATCTCTCTTAAACCCGAGCACATCCGGGATGAGAAAGTGAAG
                                    |   |||||  ||||      |   || |  |  |||||   | | ||         ||  |   ||  |   |||  |       || | || | ||  |||     | | |||||||||||| | || || ||||| |||||| | ||||| |  || |||||||| ||||||||||||||||||
------------------------------------aagcaaacaccaaat------gcataatgtta--tccattaaataattcattagacattatcagcctgatgtatgccaa-------atttgttcattatttttttaccaactcagGTTCTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAGGCCTGAGCACATTCGGGATGAGAAAGTGAAG

upper sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 3'ss of exon 9
gcaagtgtttacatttgaaatatttgtctgttgtgaagaaaaacatgaaatttccttgttgaaagccacctccatatgacatttttccttgtttttccttgcttgtaactgcagatacttttatgtattaactaagtttagtgtaccacagGTTCTTTGCCTTGTCGCCATGGAGAAACCAATCTCTCTTAAACCCGAGCACATCCGGGATGAGAAAGTGAAG
                          | | ||     ||  | |||   | |      |||||    || |  || |      | | ||| |||                    ||||||  ||    ||  |   || | ||    |||||| |||||||| || ||||||||||| ||  ||||||| ||||| ||||||||||| |||||||||||||||
-------------------------ttttattccatggagtatcatagcaatgt----ttgaatagaacttgaatgtatagcctcttcttctttc------------------aatacttacatacgctagtt---ttcactgc-ttacagGTCCTTTGCCTGGTTGCCATGGAGAAGCCCGTCTCTCTCAAACCTGAGCACATCCGAGATGAGAAAGTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttgcttgtaactgcagatacttttatgtattaactaagtttagtgtaccacagGTTCTTTGCCTTGTCGCCATGGAGAAACCAATCTCTCTTAAACCCGAGCACATCCGGGATGAGAAAGTGAAG
                             tattaac  putative branch site (score: 1)
                      ttttatgtattaacta  TA-rich tract