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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttctgggcattttaacttctacaagtattgtctcatcttgaatttgaaaattgattttaattaatttcagtggtagaatgtgcagGGAGAAGTCGAAATCTGCCTCTAAAATGAAGCCATGGCAAGGTTATGCTCATGCCGTAGTGGTTGCTGTCTCTGTCTGGTTTTGCCGGGAAACAATATTT

Basic information

species Arabidopsis thaliana
transcript AT5G13390.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G13390.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G47830.1 (Glycine max), 3'ss of exon 3
-------------------gtatgttctgggcattttaacttctac--aagtattgtctcatct-tgaatttgaaaattgattttaattaatttcagtggtagaatgtgcagGGAGAAGTCGAAATCTGCCTCTAAAATGAAGCCATGGCAAGGTTATGCTCATGCCGTAGTGGTTGCTGTCTCTGTCTGGTTTTGCCGGGAAACAATATTT
                   | || | |  |          | ||||  ||    | | ||| || |  | || |   |  |  ||| |  | |||  || | || | || ||||| |  || ||| || |  |||  ||||| |||||||||||||||| |||||||   ||||||||  | ||||| ||||||||||| |||||||| |||
gtaattgtgacaatctttggaatttgccagtttgaaggggtcctacttaacctatatttcacctctagactttattgtcaaccttattataattct-tgttggattttgtagGGATAGATCAAAAACTACTGCTAGGATGAAACCATGGCAAGGTTATGTTCATGCCTGTGTGGTTGCCTTGTCTGTATGGTTTTGCCGTGAAACAATTTTT

upper sequence: AT5G13390.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G53650.1 (Glycine max), 3'ss of exon 2
--------------------------gtatgttctg-ggcattttaacttctacaagtattgtctcatcttgaatttgaaaattgatttta--attaatttcagtggtagaatgtgcagGGAGAAGTCGAAATCTGCCTCTAAAATGAAGCCATGGCAAGGTTATGCTCATGCCGTAGTGGTTGCTGTCTCTGTCTGGTTTTGCCGGGAAACAATATTT
                          |   |||  | || ||  || ||     |  | ||| |||    |  | || |   |  |  |||  || | | |   || | || | || ||||| |  || ||| |  | ||||  ||||| ||||||||||||||||| ||||||   || |||||  | ||||| ||||||||||| |||||||| || 
ggtaattgtgacaatctttggaatttgccagtttggagggatcctacctaacctatattttgcctc----tagactttattgtcaaccttattataattcttgttgttggattttgtaGGGATAGATCCAAAACAACTTCTAGGATGAAACCATGGCAAGGTTATGCACATGCCTGTGTAGTTGCCTTGTCTGTATGGTTTTGCCGTGAAACAATTTT-

upper sequence: AT5G13390.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv01s0150g00290.t01 (Vitis vinifera), 3'ss of exon 2
gtatgttctgggcatttt--aacttc---tacaagtattgtct-catcttgaatttgaaaat-tgattttaattaatt--tcagtggtagaatgtgcagGGAGAAGTCGAAATCTGCCTCTAAAATGAAGCCATGGCAAGGTTATGCTCATGCCGTAGTGGTTGCTGTCTCTGTCTGGTTTTGCCGGGAAACAATATTT
|||||| |||||||||||  | ||||   | |||   || |   |||||| | |  ||  |  |     | || ||||  | | |  |    | |||||||| ||||| | |   ||||| || |||||  | ||||||||||||||||||||    ||||||||| | ||||||||||||||||| |||||||| |||
gtatgtactgggcatttttcatcttcatgttcaacctttttggacatcttaattcagatgacatagagctcatgaattctttattattgacctttgcagGGATAAGTCAAGAATGGCCTCAAAGATGAAAGCTTGGCAAGGTTATGCTCATGCTAGTGTGGTTGCTTTGTCTGTCTGGTTTTGCCGTGAAACAATTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcatcttgaatttgaaaattgattttaattaatttcagtggtagaatgtgcagGGAGAAGTCGAAATCTGCCTCTAAAATGAAGCCATGGCAAGGTTATGCTCATGCCGTAGTGGTTGCTGTCTCTGTCTGGTTTTGCCGGGAAACAATATTT
                            aattaat  putative branch site (score: 3)
     tcttgaatttgaaaat  TA-rich tract