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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatgatcgctgaatcttgggagattgattcattcaatgttgtcggaatttgacataacatcatggttcctttttttgtgcagAAAGGTCGGCTATCGGAGGATGAAGCTCGGTTCTACACTGCAGAAGTTGTGGATGCTCTTGAGTATATACATAGTATGGGACTGATTCATCGAGATATTA

Basic information

species Arabidopsis thaliana
transcript AT5G04510.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G33140.1 (Glycine max), 3'ss of exon 3
--------gtaagatgatcgctgaatcttgggagattgattcattcaatg-ttgtcggaatttgacat--aacatcatggttcc---tttttttgtgcagAAAGGTCGGCTATCGGAGGATGAAGCTCGGTTCTACACTGCAGAAGTTGTGGATGCTCTTGAGTATATACATAGTATGGGACTGATTCATCGAGATATTA
|| | | | | | | | | | | | | ||| |||| ||| || | | || | || | ||| | ||||||||||||||| ||||| |||||||| || || ||||| | || |||||||| |||||||| || || ||||||| | ||||| | || ||||| |||||||
tttttggaatatggaagctgttaatttgtaagctagtaactttctgcatgcttgttactgcatgatatctactagcaagatttctgatttctatgtgcagAAAGGTCGTCTATCAGAGGATGAGGCACGATTCTATGCAGCTGAAGTTGTTGATGCTCTCGAATACATACATAATTTGGGAGTCATACATCGTGATATTA

upper sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G34430.1 (Glycine max), 3'ss of exon 3
--------gtaagatgatcgctgaatcttgggagattgattcattcaatg-ttgtcggaatttgacat-----aacatcatggttcctttttttgtgcagAAAGGTCGGCTATCGGAGGATGAAGCTCGGTTCTACACTGCAGAAGTTGTGGATGCTCTTGAGTATATACATAGTATGGGACTGATTCATCGAGATATTA
|| | | | | | | | | | | | | | ||| |||| ||| || | || | | | ||| | ||||||||||||||| ||||| ||| |||| || || ||||| | || |||||| | ||||||||||| || ||||||| | ||||| | || ||||| |||||||
tttttgggatatggaagttgttaatttgtaagctagtaactttctgcatgcttgttactgcatgatatctactagcaacctttctgatttctatgtgcagAAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATCGATGCTCTTGAATACATACATAATTTGGGAGTCATACATCGTGATATTA

upper sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 4
---------gtaagatgatcgctgaatcttgggag-attgattcattcaatgttgtcggaatttgacataacatcat--ggttcctttttttg--tgcagAAAGGTCGGCTATCGGAGGATGAAGCTCGGTTCTACACTGCAGAAGTTGTGGATGCTCTTGAGTATATACATAGTATGGGACTGATTCATCGAGATATTA
||| | || ||| ||||| | || |||| | | | |||| || | ||| || ||| | || ||||||||||||| | || ||| |||||||||| ||||| | || |||||||| ||||||||||| ||||| |||||| | ||| |||| || || |||||||
ttcttgatcttaaatttgtctctgcttcttgtatgtggtgcatcatgcctacaactgcaagtttgctattgtaacatccagtgaatttgtgtgagtgcagAAAGGTCGTTTGTCAGAGAATGAAGCTCGCTTCTATGCAGCTGAAGTTGTAGATGCTCTTGAATATATTCATAGTCTAGGATTGATACACCGGGATATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcattcaatgttgtcggaatttgacataacatcatggttcctttttttgtgcagAAAGGTCGGCTATCGGAGGATGAAGCTCGGTTCTACACTGCAGAAGTTGTGGATGCTCTTGAGTATATACATAGTATGGGACTGATTCATCGAGATATTA
                        acataac  putative branch site (score: 3)
 ttcctttttttgtgc  putative PPT
 tttttttgt  TA-rich tract