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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtactttaggttgtctattttgcataaggttttaatgttggtctctagtacctgaaataattttttttttggttattagCTTTGTAGCGGAATGGATGAAAATGCTGTAGGAACCTGTGCGGAACTTATATTTGCTCCAATCGATGCTTCGTTTGCGGATGATGCACCTCTGCTTCCTT

Basic information

species Arabidopsis thaliana
transcript AT1G52150.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA08G21620.2 (Glycine max), 3'ss of exon 13
-------------------gtaagtactttaggttgtc-tattttgcataaggttttaatgttggtctctagtacctgaaataattttttttttggttattagCTTTGTAGCGGAATGGATGAAAATGCTGTAGGAACCTGTGCGGAACTTATATTTGCTCCAATCGATGCTTCGTTTGCGGATGATGCACCTCTGCTTCCTT
                    |  || | | |  || |  | ||||  |  |    ||  |     ||| | |||    || | |||| || ||   |   |||||||| || ||||||||||| |||||||| || |||||||| |||||||||| ||||||||| |||||||| ||||| |||||||| || ||  | ||||
ccgttagaatggggaaactttctgttcataacattctaatgttttctaggatacctttgtaactttctttcgtat---aattcatttgttgttgtttcggtagCTTTGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTTATATCTGCTCCAATTGATGCTTCCTTTGCTGATGATGCCCCCCTTTTACCTT

upper sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA08G21610.1 (Glycine max), 3'ss of exon 14
---gtaagtactttaggttgtctattttgcataaggttttaatg----ttgg----tctctagtacctga-----aataattttttttttggtt-attagCTTTGTAGCGGAATGGATGAAAATGCTGTAGGAACCTGTGCGGAACTTATATTTGCTCCAATCGATGCTTCGTTTGCGGATGATGCACCTCTGCTTCCTT
   |    ||   | ||    ||  | | |||||  || |||||     |||     || |   |  |        ||||||  ||| ||| ||   ||||| || || ||||||||||| |||||||| || |||||||| |||||||||| ||||||||| |||||||||||||| |||||||| || || || ||||
cttgctgttagaatggggaaccttctgttcataacattctaatggtttctgggacacctttgtgattttctttcttataattcatttgttgttttggtagCTCTGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTTATATCTGCTCCAATTGATGCTTCGTTTGCTGATGATGCCCCCCTTCTACCTT

upper sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA07G01950.1 (Glycine max), 3'ss of exon 13
----------gtaagtactttaggttgtctattttgcataaggttttaatgttggtctctag---tacctgaaataattttttttttgg----ttattagCTTTGTAGCGGAATGGATGAAAATGCTGTAGGAACCTGTGCGGAACTTATATTTGCTCCAATCGATGCTTCGTTTGCGGATGATGCACCTCTGCTTCCTT
          |     |||||  |||    |  ||  |     || ||   |   | | ||    |   |   ||||||  ||| |||     ||  |||||||| || ||||||||||| |||||||| || |||||||| |||||||||| ||||||||| |||||||| ||||| |||||||| || ||  | ||||
ccgttagaatggggaaactttctgttcataaccttctaatgttttctaggatacctttgtaactttctttcttataattcatttgttgttgttttgatagCTTTGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTTATATCTGCTCCAATTGATGCTTCCTTTGCTGATGATGCCCCCCTTTTACCTT

upper sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA07G01940.1 (Glycine max), 3'ss of exon 13
---gtaagtactttaggttgtctattttgcataa------ggttttaatg------ttg-gtctctagtacctg-aaataattttttttttggttattagCTTTGTAGCGGAATGGATGAAAATGCTGTAGGAACCTGTGCGGAACTTATATTTGCTCCAATCGATGCTTCGTTTGCGGATGATGCACCTCTGCTTCCTT
   || || |        | ||| ||  | | |       |||||  | |      ||| | || |  | | |  || | |||| ||  |   ||  ||||| || || ||||||||||| |||||||| || |||||||| |||||||||| ||||||||| |||||||| ||||| |||||||| || || || ||||
gctgttagaatggcgaactttctgttcagaacattctaatggtttctacgacacctttgtgactttctttcttataattcatttgttgctgttttggtagCTCTGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTTATATCTGCTCCAATTGATGCTTCCTTTGCTGATGATGCCCCCCTCCTACCTT

upper sequence: AT1G52150.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 13
---------------gtaagtactttaggttgtctattttgc-ataaggttttaatgttggtctctagtacctgaaataattttttttttggtt-attagCTTTGTAGCGGAATGGATGAAAATGCTGTAGGAACCTGTGCGGAACTTATATTTGCTCCAATCGATGCTTCGTTTGCGGATGATGCACCTCTGCTTCCTT
               |  |      |||||    | |||||  || | |   |  |  | ||    | ||          | |||    || || |  |||| || || ||||||||||| |||||||| || |||||||| ||||| ||||||||||| || || ||||| ||||| ||||||||||||||  | ||||
aagttcgttgaacatgctatcttagtaggtatcttcttttgttatcatgacctgttagttgttgacattattgatgtctctgtttacactgtttcaacagCTATGCAGTGGAATGGATGAGAATGCTGTTGGCACCTGTGCTGAACTCATATTTGCTCCCATTGACGCTTCTTTTGCTGATGATGCACCTCTTTTGCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaggttttaatgttggtctctagtacctgaaataattttttttttggttattagCTTTGTAGCGGAATGGATGAAAATGCTGTAGGAACCTGTGCGGAACTTATATTTGCTCCAATCGATGCTTCGTTTGCGGATGATGCACCTCTGCTTCCTT
     ttttaat  putative branch site (score: 3)
                                    ttttttttttggtt  putative PPT
                            tgaaataatttttttt  TA-rich tract