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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaaatgtttcaactattgtggcctggtgaactctgaatatatagagccttgcttgacttcccaaaaattgttttaatgagcttcagATTGCAGCTTGGGATGCAAACCTTGTTACCCCGCATAAACGTATGGGGAATTCCGAAATCAACCTGGAATCCGTTTGTGATG

Basic information

species Arabidopsis thaliana
transcript AT4G13550.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G13550.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os04g43030.1 (Oryza sativa), 3'ss of exon 4
----------gtgaaaatgtttcaactattgtggcctggtgaactctgaatatatagagccttgct---tgacttcccaaa-aattgttttaatgagcttcagATTGCAGCTTGGGATGCAAACCTTGTTACCCCGCATAAACGTATGGGGAATTCCGAAATCAACCTGGAATCCGTTTGTGATG
          |    | | || |   | |     | |  | |  | |   || ||| ||  |   |   ||| |        |||  ||||  | | |   || |||| |||||||||||||||||||||||||| || ||||| ||||| ||| | | | |   ||| |||||  |||||||||
attctgtgcagcattactcttccttttttatcaactttattacatattggtacatacagtatcagtaaatgattatttgtttaatcattttcctcaac---agGTTGCTGCTTGGGATGCAAACCTTGTTACCCCACACAAACGCATGGGAAATGCTGGATTGTGCCTTGAATCGCTTTGTGATG

upper sequence: AT4G13550.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G377641_T01 (Zea mays), 3'ss of exon 5
----gtgaaaat--gtttcaactattgtggcctggtgaactctgaatatat----agagccttgcttgacttcccaaaaattgttttaatgagctt--cagATTGCAGCTTGGGATGCAAACCTTGTTACCCCGCATAAACGTATGGGGAATTCCGAAATCAACCTGGAATCCGTTTGTGATG
     | ||  |  |||| ||  || ||    || |  |   ||  | ||     |  |  ||   || |||     |  | ||   |    |||    || ||||||||||||||||||||||||||||||| || ||||| ||||| ||| | | | |  |||| |||||  |||||||||
ttcttttaattttcgttttaatcat-gtactttgctatatcttggttttactttgaatgatttctgtggcttttggcatctggtgccatgtcgctcaatagGTTGCAGCTTGGGATGCAAACCTTGTTACCCCACACAAACGCATGGGAAATGCTGGATTATACCTTGAATCATTTTGTGATG

upper sequence: AT4G13550.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA20G20890.1 (Glycine max), 3'ss of exon 3
---------gtgaaaatgtttcaactattgtggcctggtgaactctgaatatatagagccttgc----ttgacttcccaaaaattgttttaatgagcttcagATTGCAGCTTGGGATGCAAACCTTGTTACCCCGCATAAACGTATGGGGAATTCCGAAATCAACCTGGAATCCGTTTGTGATG
          |  |||  |   || |  ||        ||  |     | | |||    | ||     || |  | | ||  | |     | |     | |||| |||||||||||||||||||| || || || || ||||| ||||||||| | |      | ||||| |   | |||||||
atcatctggattcaaaaatgaaaaatcatgaaaatgtatgttcatgtcaaaaatattatcctgaaaagttcatcttctaacgactagc--agtatatcttagATCGCAGCTTGGGATGCAAACCTGGTAACTCCTCACAAACGCATGGGGAATGCAGCTGCTGATCTGGAGTGGCTCTGTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgaatatatagagccttgcttgacttcccaaaaattgttttaatgagcttcagATTGCAGCTTGGGATGCAAACCTTGTTACCCCGCATAAACGTATGGGGAATTCCGAAATCAACCTGGAATCCGTTTGTGATG
                                       ttttaat  putative branch site (score: 3)
                               aaaaattgttttaatg  TA-rich tract