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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttctgcttgaagtgcacctgttggattttgttttctctcaggtaagttcactacattaatctcatctctaattaatcaaaaacacttctttctgcagAGATATGGTGAAATAAGTAAACAAAGGCTTGATCGTGCCATTCTTACCTTCTTCCAAAATTTCCGGAAGTCTTACGTTGGTGATCAGGCCATGCATTCAT

Basic information

species Arabidopsis thaliana
transcript AT5G06120.3
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G06120.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: LOC_Os03g42050.1 (Oryza sativa), 3'ss of exon 14
-attttctgcttgaagtgcacctgttggattttgttttctctcaggtaagttcactacattaatctcatctctaattaatcaaaaacacttctttct--gcagAGATATGGTGAAATAAGTAAACAAAGGCTTGATCGTGCCATTCTTACCTTCTTCCAAAATTTCCGGAAGTCTTACGTTGGTGATCAGGCCATGCATTCAT
 | ||| | ||| |  | ||       | ||||   | |||| |      |||||  | | |  |   | | | | | || |    |  | | ||||  ||||||||||   | | ||||||| ||||| ||||||||||| ||||||| |||  | ||||||||| | | ||| || || || ||||| ||||||||||| |
caatttgtcctttactttcattaacctg-ttttagctgctcttataaccattcacagcttca--caagtttgtgaatgatgacttgcggtgcattctttgcagAGATATCAAGTATTAAGTAAGCAAAGACTTGATCGTGCTATTCTTATCTTTGTGCAAAATTTCAGAAGGTCATATGTAGGAGATCAAGCCATGCATTCTT

upper sequence: AT5G06120.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA06G00520.1 (Glycine max), 3'ss of exon 8
-attttctgcttgaagtgcacctgttggattttgttttctctcaggtaagttcactacattaatctcatctctaattaatcaaaaacactt-ctttctgcagAGATATGGTGAAATAAGTAAACAAAGGCTTGATCGTGCCATTCTTACCTTCTTCCAAAATTTCCGGAAGTCTTACGTTGGTGATCAGGCCATGCATTCAT
 ||| | |  |     ||    | |||    |   |||   | | | | || |  || |  ||| | || ||| || | |  |    | |  | ||   |||||||||||||| ||||| |||||||| || ||| | || |||||||| ||||| ||  ||||||| |||||||| || || |||||||| || ||||| |
tattgttttttgattttgtttttcttgatgataaatttagtttatg-acgtgctttagaagaatgt-atttcttataatttcatgttattggcatttgacagAGATATGGTGAGATAAGCAAACAAAGACTAGATAGGGCAATTCTTACTTTCTTTCAGCATTTCCGAAAGTCTTATGTAGGAGATCAGGCTATTCATTCTT

upper sequence: AT5G06120.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA04G00430.1 (Glycine max), 3'ss of exon 14
----attttctgcttgaagtgcacctgttggattttgttttctctcaggtaagttcactacattaatctcatctctaattaatcaaaaacactt-ctttctgcagAGATATGGTGAAATAAGTAAACAAAGGCTTGATCGTGCCATTCTTACCTTCTTCCAAAATTTCCGGAAGTCTTACGTTGGTGATCAGGCCATGCATTCAT
     |||| ||||| |  |   | || ||    |   |||   | | | | || |  || |  ||| | || ||| ||   |  |    | |  | ||   |||||||||||||| ||||| |||||||| || ||| | || |||||||| ||||| ||  ||||||| |||||||| || || |||||||| || ||||| |
tattgttttttgctttagtttttcttgatga---taaatttagtttatg-acgtgctttagaagaatgt-atttcttatattttcatgttattggcatttgacagAGATATGGTGAGATAAGCAAACAAAGACTAGATAGGGCAATTCTTACTTTCTTTCAGCATTTCCGAAAGTCTTATGTAGGAGATCAGGCTATTCATTCTT

upper sequence: AT5G06120.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: Vv13s0067g01920.t01 (Vitis vinifera), 3'ss of exon 16
attttctgcttgaagtgcacctgttggattttgttttctctcaggtaagttcactacattaatctcatctctaattaatcaaaaacacttc--tttctgcagAGATATGGTGAAATAAGTAAACAAAGGCTTGATCGTGCCATTCTTACCTTCTTCCAAAATTTCCGGAAGTCTTACGTTGGTGATCAGGCCATGCATTCAT
      |   || | ||  ||||||   ||||   ||   |     || |    |     ||  |     ||| | | |  |      |    ||| | ||||||||| |||||||||| || ||||| || |||||||||||||| || ||||| ||  |||| || |||||||| || || ||||||||||||||||| |
gaagattaaatggattg-gcctgttaactttttaatttgttttcacaaatatcttggga-aacattgaaactattgattttattctgttgtcatttttacagAGATATCGTGAAATAAGCAAGCAAAGACTCGATCGTGCCATTCTCACATTCTTTCAGCATTTTCGAAAGTCTTATGTAGGGGATCAGGCCATGCATTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagttcactacattaatctcatctctaattaatcaaaaacacttctttctgcagAGATATGGTGAAATAAGTAAACAAAGGCTTGATCGTGCCATTCTTACCTTCTTCCAAAATTTCCGGAAGTCTTACGTTGGTGATCAGGCCATGCATTCAT
                           aattaat  putative branch site (score: 3)
                                        cacttctttct  putative PPT
                        tctaattaatcaaaaa  TA-rich tract