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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgctattctcattatggccttactcatactattttgttggagtatgattctagggttgaagaaattgcagatgcttgcaatagagacagctattactggcttattatattaataaaaggtggtgttttcagGAAAGGAAGAGTATCCGGCCTACTTTCTCAGCTGAGAAGATTTTTGGAGGAACCTTGTTAGCAATGTGTTCGAATGATTTCATCTGCTTCTATGATTGGG

Basic information

species Arabidopsis thaliana
transcript AT3G15980.3
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 12
gtttgctattctcattatggccttactcatactattttgttggagtatgattctagggttgaagaaattgcagatgcttgcaatagagacagctattactggcttattatattaataaaaggtggtgttttcagGAAAGGAAGAGTATCCGGCCTACTTTCTCAGCTGAGAAGATTTTTGGAGGAACCTTGTTAGCAATGTGTTCGAATGATTTCATCTGCTTCTATGATTGGG
                         |  ||   |  ||  ||   | |     ||   ||  | |||  ||| || ||     |   |     | | | || | | | |  | ||| |    || | ||||||||| | ||| | |||||| ||| | || ||||| |||   |||||||| ||    ||||| ||||||||||| | ||||||||||||||| ||||| ||||
------------------------gcaaatgtgaagtttctga--tctagccata---tttcacaaaaagcacattctaatcttttggt--attctcattgtcctgtgacttaaattatc--tgat-ttttcagGAGAAGAAAACTATCCGCCCTTCATTTTCAGCAGAGCGTATTTTTGGTGGGGTATTGTTGGCAATGTGTTCTAGTGATTTCATCTGCTTTTATGACTGGG

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 12
gtttgctattctcattatggccttactcatactattttgttggagtatgattctagg-gttgaagaaattgcagatgcttgcaatagagacagctattactggcttattatattaataaaaggtggtgt-tttcagGAAAGGAAGAGTATCCGGCCTACTTTCTCAGCTGAGAAGATTTTTGGAGGAACCTTGTTAGCAATGTGTTCGAATGATTTCATCTGCTTCTATGATTGGG
                     || |   |||  ||| | ||     ||  || |||  ||     ||||   | | | |  |  ||| || || | | | |||           |||  ||  | || | |||||||||| |||||||||||| || ||||| |||||||||   || ||||| || ||  | || |||||||| || ||||||||||||||||| || |||||||
--------------------tctcaaaaataacattctctt-----attgttttagatgtctgccaaatgaaataagttgtctctaggga-agttttaaatgga----------aatggaattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAGCGAATATTTGGCGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTACGATTGGG

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 1
gtttgctattctcattatggccttactcatactattttgttggagtatgattctagggttgaagaaattgcagatgcttgcaatagagacagctattactggcttattatattaataaaaggtggtgt-tttcagGAAAGGAAGAGTATCCGGCCTACTTTCTCAGCTGAGAAGATTTTTGGAGGAACCTTGTTAGCAATGTGTTCGAATGATTTCATCTGCTTCTATGATTGGG
                        |   |||  ||| | ||   || | |           ||  || |  |  |  |  |  ||| || || | | | |||           ||| |||  | || | |||||||||| |||||||||||| || ||||| ||||||||    || ||||| || ||  | || |||||||| || ||||||||||||||||| ||||||||||
----------------------caaaaaataacattctcttattgttttagatgtcttccaaatgaactataagttgtctc--taggga-agttttaattgga----------aatgaaattttgtatatttcagGAAAAGAAGAGTATCCGACCAACTTTTTCAGCTGAACGAATATTTGGTGGCACTGTATTGGCAATGTGCTCAAATGATTTCATCTGCTTTTATGATTGGG

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 12
gtttgctattctcattatggccttactcatactattttgttggagtatgattctagggttgaagaaattgcagatgc-ttgcaatagagacagctattactggcttattatattaataaaaggtggtgt-tttcagGAAAGGAAGAGTATCCGGCCTACTTTCTCAGCTGAGAAGATTTTTGGAGGAACCTTGTTAGCAATGTGTTCGAATGATTTCATCTGCTTCTATGATTGGG
                            ||    |     ||  || || ||  | |  | | | || |||| ||   || |  |   || |  |   || |  ||       |||| ||  ||||  | |||||||||| || |||| |||| || || || ||||||||| | |||||||||||||| || || |||||||| || |||||||| || || |||||||| ||||
---------------------------tattgcctgccactgttgtctggttacaagtgttaggtaaatgcaaatatattcctgttcggagaaattcaacagagtt-------taatgaa--gtggcatctttcagGAAAAGAGGAGTGTCCGACCAACATTTTCAGCTGAGCATATTTTTGGAGGAACTTTATTGGCAATGTGCTCAAATGATTTTATTTGTTTCTATGACTGGG

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: PP1S61_1V6.1 (Physcomitrella patens), 3'ss of exon 12
gtttgctattctcattatggccttactcatactattttgttggagtatgattctagggttgaagaaattgcagatgcttgcaatagagacagctattactggcttat-tatattaataaaaggtggtgttttcagGAAAGGAAGAGTATCCGGCCTACTTTCTCAGCTGAGAAGATTTTTGGAGGAACCTTGTTAGCAATGTGTTCGAATGATTTCATCTGCTTCTATGATTGGG
                              |  ||||| |      | ||   || |  ||   ||  ||   ||  |  |  | |    | | |||    | |||| |||| |    | |  | |||||||||||| || || ||||| |||||||||||||| |||||    || | ||| ||||| ||| | ||| || |  | ||||| ||||| || |||||||||||||
------------------------------atgattttat----acacgaacttatgactgtttaatgtgtt-atattgactctggcataaaccattctaagtttatatatactttggatattttgtgttttcagGAGAGAAAAAGTATTCGGCCTACTTTCTCCGCTGAAGCCATCTATGGCGGAACTTTGCTTGCAGTGCGAACAAATGAGTTCATATGTTTCTATGATTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaatagagacagctattactggcttattatattaataaaaggtggtgttttcagGAAAGGAAGAGTATCCGGCCTACTTTCTCAGCTGAGAAGATTTTTGGAGGAACCTTGTTAGCAATGTGTTCGAATGATTTCATCTGCTTCTATGATTGGG
                              tattaat  putative branch site (score: 2)
                                              tgttttc  putative PPT
              tattactggcttatta  TA-rich tract