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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaccactaattatcttagcatataataagatttttcagctctctaatgttatctgatgctaatctttattgtttttgttcatggtctagGGTCTGGGGAAGACGCTTCAAACCATTTCTTTGTTGGCTTACCTGCATGAGTACAGGGGAATTAATGGCCCTCATATGGTAGTTGCTCCAAAATCAACCC

Basic information

species Arabidopsis thaliana
transcript AT5G18620.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 5
---------------------------------------------gtaaaccacta--attatctta--gcatataataagatttttcagctctctaatgttatctg--atgctaatctttattgtttttgttcatggtctagGGTCTGGGGAAGACGCTTCAAACCATTTCTTTGTTGGCTTACCTGCATGAGTACAGGGGAATTAATGGCCCTCATATGGTAGTTGCTCCAAAATCAACCC
                                             | | |  | ||  | || |||    ||| ||||   ||     |    |  | |||||   |  ||| | || | ||      |   |  |  |  |||| || || || ||  | ||||| || |||||||| |  ||| | ||||||| ||| ||||| |  |||||||||||||| |||||||||||||| || |
gtaggtagtagatgctggcttcagataaatcacattcaaatagctgcatatgaatacaagtaccttgtgacatgtaattttatggaatatgagttgattgttaaaagccatgttgatatataaataaatatattgtttttcagGGGCTTGGCAAAACCTTACAAACAATATCTTTGTTAGGCTACTTACATGAGTTCAGAGGAATCACGGGCCCTCATATGGTGGTTGCTCCAAAATCTACTC

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 5
---------------------------------------------gtaaaccacta--attatct--tagcatataataagat---ttttcagctctctaatgttatctgatgctaatctttattgtttttgttcatggtctagGGTCTGGGGAAGACGCTTCAAACCATTTCTTTGTTGGCTTACCTGCATGAGTACAGGGGAATTAATGGCCCTCATATGGTAGTTGCTCCAAAATCAACCC
                                             | | |  | ||  | || ||  |  ||| ||||  |||    | | || |   |  |   | |    |  ||   | | |   | | ||  |  |  |||| ||||| || ||  | ||||| || |||||||| |  ||| | ||||||| ||| ||||| |  |||||||||||||| |||||||||||||| || |
gtaggtagcagatgctggcctcagataaatcacattcaagtagctgcatatgaatacaagtacctgttgacatgtaatttgatggaatatgagttgattgttaaaagccatggtgaaatataaataaatatatt-gtttttcagGGGCTGGGCAAAACATTACAAACAATATCTTTGTTAGGCTACTTACATGAGTTCAGAGGAATAACAGGCCCTCATATGGTGGTTGCTCCAAAATCTACTC

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 5
---------------------------------------------------------------------------------------gtaaaccactaattatcttagcatataataagatttttcagctctcta-atgttatctgatgctaatctttattgtttttgttcatggtctagGGTCTGGGGAAGACGCTTCAAACCATTTCTTTGTTGGCTTACCTGCATGAGTACAGGGGAATTAATGGCCCTCATATGGTAGTTGCTCCAAAATCAACCC
                                                                                       |  |     || ||| |  | |  | |     |    | || | |  | | |||   | |    | |  | |    |     | || | | |||| || || || ||  | ||||| || || || || | ||| ||||| |||| ||| ||||| || || ||||||||||| |||||||||||||| || |
gtaggtgtttggtgggcttgcagttgtgtctaattgaattaacttcatgtaatgcaagttgctttgtcatgtgtaatttgatagattgagatgatttagttacccca-ctcagaggggtaaggcttagatgttgataagttggtttagctaagtaatgacaaatgaatgtgattggc-agGGGCTTGGTAAAACATTGCAAACTATATCCTTATTAGGTTATCTGCACGAGTTCAGAGGAATCAAAGGTCCTCATATGGTGGTTGCTCCAAAATCTACTC

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 5
------------gtaaaccactaattatcttagcatataataagatttttcagctctctaatgttatctgatgctaatctttattgtttttgttcatggtctagGGTCTGGGGAAGACGCTTCAAACCATTTCTTTGTTGGCTTACCTGCATGAGTACAGGGGAATTAATGGCCCTCATATGGTAGTTGCTCCAAAATCAACCC
             || | ||    |||| |     | | |||  ||   |   || |  |     ||| ||   || |    | |   | |    |    | |||||||||| || ||  | |||||||||||||| |||| ||| ||||||||||  || ||||| | ||| || || ||||| ||||| |||||||| || |
tgatttttttttctataacatctcttatgt-gttgttttatataatcaatttacttttgatca--atcagaatatactgacaacttggtattcctacca-ccagGGTCTGGGTAAAACATTGCAAACCATTTCTTTATTGGGTTATCTGCATGAGTTTAGAGGAATAACTGGTCCCCACATGGTTGTTGCCCCAAAATCGACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagctctctaatgttatctgatgctaatctttattgtttttgttcatggtctagGGTCTGGGGAAGACGCTTCAAACCATTTCTTTGTTGGCTTACCTGCATGAGTACAGGGGAATTAATGGCCCTCATATGGTAGTTGCTCCAAAATCAACCC
                      tgctaat  putative branch site (score: 2)
                                     tttttgttc  putative PPT
                         taatctttattgtttt  TA-rich tract