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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtctttttttattaccaacactaaaatgcacaagttacactctcattaagcatgtgtttgattaatggctgcaataaatcaccgtatagagagctaatatgacagttaaatagcagagcatgattctacaacttcggaggtttgaaatgtattggctctgttttggtttttgtgtgtagATGGCAGACCCTTTAACTGCATTGATGTATGCGGTCCAAGTGATGAAGTTGCTCAAGAGCCTCACAGAGAAGACTGTGAGAGAAAGGGAAGCTTCCTCTT

Basic information

species Arabidopsis thaliana
transcript AT1G08340.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08340.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os12g05900.1 (Oryza sativa), 3'ss of exon 4
gtcagtctttttttattaccaacactaaaatgcacaagttacactctcattaagcatgtgtttgattaatggctgcaataaatcaccgtatagagagctaatatgacagttaaatagcagagcatgattctacaacttcggaggtttgaaatgtattggctctgttttggtttttgtg-tgtagATGGCAGACCCTTTAACTGCATTGATGTATGCGGTCCAAGTGATGAAGTTGCTCAAGAGCCTCACAGAGAAGACTGTGAGAGAAAGGGAAGCTTCCTCTT
                                                                                                  || | ||  | |   || || || |||| | ||   | |||       | |  || |||    ||||| |      |||  || |||||||||| || || ||||||||||||||||| || ||||||||||| || || ||||  || | | | || ||  | |  || || ||||  ||   | 
-------------------------------------------------------------------------------------------------gtagtgtgtta-tcctattgc-gatcatggtactgatatttca------ttaggtggattctaactgttgtcacacatgtaatgcagATGGCAGATCCCTTGACTGCATTGATGTATGCAGTACAAGTGATGAATTTTCTTAAGATGCTAATACAAAAAACCCTCAAGGATAGAGAAGAGTCTGATC

upper sequence: AT1G08340.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G136069_T01 (Zea mays), 3'ss of exon 3
gtcagtctttttttattaccaacactaaaatgcacaagttacactctcattaagcatgtgtttgattaatggctgcaataaatcaccgtatagagagctaatatgacagttaaatagcagagcatgattctac---aacttcggaggtttgaaatgtattggctctgttttggtttttgtgtgtagATGGCAGACCCTTTAACTGCATTGATGTATGCGGTCCAAGTGATGAAGTTGCTCAAGAGCCTCACAGAGAAGACTGTGAGAGAAAGGGAAGCTTCCTCTT
                                                                              ||   ||  ||    | |    |      ||  || |||||    ||   ||  |   | |   |||    | |   ||  |  || |        ||     || |||||||||| ||||| |||||| |||||||||| |||||||||||||| || |||||||  ||   | | |||||  | |  || || || |  ||| || 
-----------------------------------------------------------------------------gtattgcattgtgctaatattgtagcaattagcaaactagcaatatatacctcaccccgagcagtggaacggttatgcgtgctaactattagcaaacttaca-atgcagATGGCAGATCCTTTGACTGCACTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGATGCTGGTACAAAAGACCCTCAAGGATAGAGAGGAGTCCACTC

upper sequence: AT1G08340.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G113073_T01 (Zea mays), 3'ss of exon 4
gtcagtctttttttattaccaacactaaaatgcacaagttacactctcattaagcatgtgtttgattaatggctgcaataaatcaccgtatagagagctaatatgacagttaaatagcagagcatgattctacaacttcggaggtttgaaatgtattggctctgttttggtttttgtgtgtagATGGCAGACCCTTTAACTGCATTGATGTATGCGGTCCAAGTGATGAAGTTGCTCAAGAGCCTCACAGAGAAGACTGTGAGAGAAAGGGAAGCTTCCTCTT
                                                                                        |  |  | ||| ||| || ||   | ||||| |  || | | || | ||||     |   ||   |  |  || |     | ||    ||   |||||||||| ||||| |||||| |||||||||| |||||||||||||| || |||||||  ||   | | |||||  | |  || || || |  ||  |  
------------------------------------------------------------------------------------gtattgcattgtgctgatacgatagc-gattagcaaactatcaatatata-cttcacccatcacaatgatgctaactatagcacgcttacaatgc--agATGGCAGATCCTTTGACTGCACTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGATGCTGGTACAAAAGACCCTCAAGGATAGAGAGGAGTCGACCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctacaacttcggaggtttgaaatgtattggctctgttttggtttttgtgtgtagATGGCAGACCCTTTAACTGCATTGATGTATGCGGTCCAAGTGATGAAGTTGCTCAAGAGCCTCACAGAGAAGACTGTGAGAGAAAGGGAAGCTTCCTCTT
                                          tttttgt  CT-rich tract
                    aaatgtatt  TA-rich tract