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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttttctctgcgttggctacaagataatgctcatactacctgctgttttgtctaattattcttgttttcttttgcaacagATCTATGGTTCTAGTGTCAATGGTACGATTCGCCATAAATGTCTCTCAGTCATTGGAAAGTTGATGTATTTCAGCAGTTCAGAAATGATTCAATCTCTAA

Basic information

species Arabidopsis thaliana
transcript AT4G38600.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G38600.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA04G00530.1 (Glycine max), 3'ss of exon 6
------------------------------------------------------------------------------------gtaattt-ttctctgcgttggctacaagataatgctcatactac-ctgctgttttgtctaattattcttgtttt-cttttgcaacagATCTATGGTTCTAGTGTCAATGGTACGATTCGCCATAAATGTCTCTCAGTCATTGGAAAGTTGATGTATTTCAGCAGTTCAGAAATGATTCAATCTCTAA
                                                                                     ||| |   ||| |   ||   | |  ||         | || | || | ||    | | | || | |||| || |||||| ||||||| |||||| |||| ||||||||| |  |||| || |||||||| || ||||||||||| ||||||||||||||||   | || ||||| || ||| || 
gttcaatgcttaaatttacttaattgttaaaatgctcaaattatattttgtgatttgtttattaatttttaacttcttaaataaataactggctctattttttatatcctcgacttcttcattccttcactcccgtcacttattactagttttgtcttgcttttgaaacagATATATGGTGCTAGCGTCAATGGTCCAGTTCGGCACAAATGTCTTTCTGTCATTGGAAAATTGATGTATTTCAGCACAGCTGAGATGATCCAGTCTTTAC

upper sequence: AT4G38600.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G03640.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------------gtaatttttctctgcgttggctacaagataatgctcatactacctgctgttttgtctaattattcttgttttcttttgcaacagATCTATGGTTCTAGTGTCAATGGTACGATTCGCCATAAATGTCTCTCAGTCATTGGAAAGTTGATGTATTTCAGCAGTTCAGAAATGATTCAATCTCTAA
                                                           ||| ||    |   |||       | |  | || ||    | |  |   ||   | || ||  | | || || |||  | |||| ||||||||||||||||||||| |  |||| || ||||| || || ||||||||||| ||||||||||||||||   |||| ||||| || ||| |  
gttgatatttgtgcatcaattgcttaaactttgcttgataaatttgttaaattgaaaaaaatgttctgataaattgctcctttgct--tccttatttgtcttctttggttaattgatgatattggcttgctgttgatatagATATATGGTTCTAGTGTCAATGGTCCTGTTCGGCACAAATGCCTTTCTGTCATTGGAAAATTGATGTATTTCAGCACAGCAGAGATGATCCAGTCTTTGT

upper sequence: AT4G38600.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G11490.2 (Glycine max), 3'ss of exon 6
-----------------------------------------gtaatttttctctgcgttggctacaag-----ataatgctcat--actacctg------ctgttttgtctaatta----ttcttgttttcttttgcaacagATCTATGGTTCTAGTGTCAATGGTACGATTCGCCATAAATGTCTCTCAGTCATTGGAAAGTTGATGTATTTCAGCAGTTCAGAAATGATTCAATCTCTAA
                                          ||| |||  |           | |||     ||| ||||| |   || |||       ||  ||||  |||||     |  | | || ||||||  |||||| ||||||||||||||||||||| |  |||| || ||||| || || |||||||| || ||||||||||||||||   |||| ||||| || ||| |  
gttgacatttgtgcattgatcatttgcttaaattttgcttgataaatttgttaaattaaaaaaagaagttctgatattgctcctttgcttccttatttatcttctttggttaattgatggtattggcttgcttttgatacagATATATGGTTCTAGTGTCAATGGTCCTGTTCGGCACAAATGCCTTTCTGTCATTGGGAAATTGATGTATTTCAGCACGGCAGAGATGATCCAGTCTTTGT

upper sequence: AT4G38600.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA06G00600.2 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------------------------------gtaatttttctctgcgttggctacaagataatgctcatactacctgctgttttgtctaattattcttgttttcttttgcaacagATCTATGGTTCTAGTGTCAATGGTACGATTCGCCATAAATGTCTCTCAGTCATTGGAAAGTTGATGTATTTCAGCAGTTCAGAAATGATTCAATCTCTAA
                                                                                              | || | |   |     ||    | || |    ||| |||| ||  || | ||||  || |   || |||||| |  |||| |||||| |||| ||||||||| |  |||| || |||||||| || ||||||||||| ||||||||||||||||   | || ||||| || ||| |  
gttcaatgtttaaatttactcatcgttaaaatgctcaaattgtattttgtgatttgtttataaatttttaattttttaaataaataaccagctctattttttatatccttgacttcttcattccttcact-cctg-tgacttat-taatagttttgtcttacttttgaagtagATATATGGTGCTAGCGTCAATGGTCCAGTTCGGCACAAATGTCTTTCTGTCATTGGAAAATTGATGTATTTCAGCACAGCTGAGATGATCCAGTCTTTGT

upper sequence: AT4G38600.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 6
gtaatttttctctgcgttggctacaagataatgctcatactacctgctgttttgtctaattattcttgttttcttttgcaa--cagATCTATGGTTCTAGTGTCAATGGTACGATTCGCCATAAATGTCTCTCAGTCATTGGAAAGTTGATGTATTTCAGCAGTTCAGAAATGATTCAATCTCTAA
|||| ||||||       |   ||  | | |    |||||        ||||  | || |||||  | |||| | |||  |  ||||||||||| || ||||| |||||  |  |||||||||||||| | ||||| |||||||| || ||||| |||||||   |||| ||||| || ||| | |
gtaagttttct------agttcacttggttagcagcatacagttcatagtttc-tttagttattggtattttttcttgtcaaccagATCTATGGATCCAGTGTGAATGGCCCTGTTCGCCATAAATGTTTGTCAGTTATTGGAAAATTAATGTACTTCAGCACCGCAGATATGATCCAGTCTTTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgctcatactacctgctgttttgtctaattattcttgttttcttttgcaacagATCTATGGTTCTAGTGTCAATGGTACGATTCGCCATAAATGTCTCTCAGTCATTGGAAAGTTGATGTATTTCAGCAGTTCAGAAATGATTCAATCTCTAA
                        gtctaat  putative branch site (score: 3)
                              ttattcttgttttctt  CT-rich tract
                           taattattcttgtttt  TA-rich tract