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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttcacacaagttttaatttgttctattcgtgattgtgtcttctttgttactcagttgcattttcagttctgtgctatgagcttattcttttctgtttagATATCAGATGCTATACGTGATGGAGCTGAAGGATTTTTAAGAACGCAGTATGGTACTATATCCAAAATGGCGTTCTTGCTAGCTTTTGTGATCCTTTGCA

Basic information

species Arabidopsis thaliana
transcript AT1G16780.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 3'ss of exon 3
gtaatttcacacaagttttaatttgttctattcgtgattgtgtcttctttgttactcagttgcattttcagttctgtgctatgagcttattcttttctgtttagATATCAGATGCTATACGTGATGGAGCTGAAGGATTTTTAAGAACGCAGTATGGTACTATATCCAAAATGGCGTTCTTGCTAGCTTTTGTGATCCTTTGCA
   |  ||  ||   | || |   ||| || |    ||  || | |||||     |||| |  ||  |   || | |  |  | || |     ||  |||| ||||||| ||||| ||| | ||||| |||||||||||||| || || || ||||| ||||| || |||||||| |   | || ||  |||| || ||| |||
cctacatcctactgttcttgaga-gttgtacttagtatattgacatctttacctgtcagatttatgctgtattttttattgggtgcct---tcttgatgttcagATATCTGATGCCATAAGAGATGGTGCTGAAGGATTTTTTAGGACACAATATGGGACTATTTCTAAAATGGCTTGTATCCTGGCACTTGTCATTCTTGGCA

upper sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G00350.1 (Glycine max), 3'ss of exon 3
gtaa---tttcacacaagttttaatttgttctattcgtgattgtgtcttctttgttactcagttgcattttcagttctgtgctatgagcttattct-tttctgtttagATATCAGATGCTATACGTGATGGAGCTGAAGGATTTTTAAGAACGCAGTATGGTACTATATCCAAAATGGCGTTCTTGCTAGCTTTTGTGATCCTTTGCA
||||   | |  |  |   | | |  | || ||| | ||| ||  | |   ||    | |  |   |   |   ||   ||   ||||||||   | || || | |||||||||||||||||||| || ||||||||||||||||| || || |||||||| | |||||| || |||||  | ||||| ||  |||| || |||||||
gtaaatctctttcctataatctcaactcttttat-catgactgcttttcgatttcatcaccatca-acccttgttttcttgtcctgagcttagcatgttgctttctagATATCAGATGCTATACGAGACGGAGCTGAAGGATTTTTCAGGACCCAGTATGGGAGTATATCTAAGATGGCCATGTTGCTTGCCCTTGTTATTCTTTGCA

upper sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G24120.2 (Glycine max), 3'ss of exon 3
gtaatttcacacaagttttaatttgttctattcgtgattgtgtcttctttgttactcagttgcattttcagttctgtgctatgagcttattct-tttctgtttagATATCAGATGCTATACGTGATGGAGCTGAAGGATTTTTAAGAACGCAGTATGGTACTATATCCAAAATGGCGTTCTTGCTAGCTTTTGTGATCCTTTGCA
                 | ||| | ||   |  || ||     ||  ||| |  ||||  || ||  |   |     |   |||||||||  | || || | ||||||||||| |||||||| || ||||||||||||||||| || || |||||||| | |||||| || |||||  | ||||| ||  |||| || |||||||
----------------gtaaatctctttcct--gtaatctcaactcttttat--ctcacatgaatccttgttatctcgtcctgagcttatcatattgctttctagATATCAGACGCTATACGAGACGGAGCTGAAGGATTTTTCAGGACCCAGTATGGGAGTATATCTAAGATGGCCATGTTGCTTGCACTTGTCATTCTTTGCA

upper sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 3
gtaatttcacacaagttttaatttgttctattcgtgattgtgtcttctttgttactcagttgcattttcagttctgtgctatgagcttattctttt-ctgtttagATATCAGATGCTATACGTGATGGAGCTGAAGGATTTTTAAGAACGCAGTATGGTACTATATCCAAAATGGCGTTCTTGCTAGCTTTTGTGATCCTTTGCA
 | || | | | | |    || ||         |   |  | || |  || | | ||||      |||  |  || ||   |||||||||| ||   || | |||||||||||||| |||||||||||||| ||||| || || || || || ||||| ||||| ||||| |||||  | || |||||| ||||||||||| |||
attatctgaga-atgaccaaactta---agaatgaagtattctcatggttataattcagaaattctttgtgaact-tgtcctgagcttattattccactttctagATATCAGATGCGATACGTGATGGAGCAGAAGGTTTCTTCAGGACCCAATATGGGACTATTTCCAAGATGGCAATGTTACTAGCTCTTGTGATCCTTAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttactcagttgcattttcagttctgtgctatgagcttattcttttctgtttagATATCAGATGCTATACGTGATGGAGCTGAAGGATTTTTAAGAACGCAGTATGGTACTATATCCAAAATGGCGTTCTTGCTAGCTTTTGTGATCCTTTGCA
                                    cttattcttttctgtt  CT-rich tract
                                     ttattctttt  TA-rich tract