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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatactattattatacatatgttgacttattaagttttgttatcaagactgattagtaccaagtctctactcgttgcagAAAATGTATTTAACCTTTGCAGCTTCCCCAATCTAACTGGGATGAAGTATAGACAGTTAAGACTGGGGTTCCAGGAG

Basic information

species Arabidopsis thaliana
transcript AT5G02940.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G02940.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA10G32300.1 (Glycine max), 3'ss of exon 12
-----gtaagatacta---ttattatacat---atgttgacttattaagttttgt---tatcaagactgattagtaccaagtctc---tactcgttgcagAAAATGTATTTAACCTTTGCAGCTTCCCCAATCTAACTGGGATGAAGTATAGACAGTTAAGAC-TGGGGTTCCAGGAG
      |||  |  ||   |  ||| || |    || | |||| |||  |  |||   |      | |  | | | | || | |    ||    |||||||||||||||| || ||||||||||| || ||||||   ||  |||  ||||||||  |||||| | |  |||||| | 
ttgccttaaatttgtaaactggttaaacctttcgtgataactttttagttgatgtacatgcatttattcttgaattctaatttttagttatcatttgcagAAAATGTATTCAATCTTTGCAGCTTGCCTAATCTAGAAGGACTGACATATAGACAAATAAGACATAGATTTCCAGAA-

upper sequence: AT5G02940.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA20G35310.1 (Glycine max), 3'ss of exon 12
----------gtaagatactattattatacat-atgttgacttattaagttttgt---tatcaagactgattagtaccaagtctc---tactcgttgcagAAAATGTATTTAACCTTTGCAGCTTCCCCAATCTAACTGGGATGAAGTATAGACAGTTAAGACTGGGGTTCCAGGAG
           |   | ||| ||   |    | ||| |||||| |||  |  |||   |      | |  | ||| | || | |    |||   |||||||||||||||| || ||||||||||| || ||||||   || ||||  ||||| ||  ||||||   | || || || 
ttgccttaaatttgaaaactgtttaaaccttttatgatgactttttagttgatgtacatgcatttattcttgagttctaatttttagttaccatttgcagAAAATGTATTCAATCTTTGCAGCTTGCCTAATCTAGAAGGAATGACATATAGGCAAATAAGACATAGATTTCAAGAA

upper sequence: AT5G02940.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv05s0020g04630.t01 (Vitis vinifera), 3'ss of exon 12
-----------------------gtaagatactattattatacatatgttgacttattaagttttgttatcaagactgattagtaccaagtctctactcgttgcagAAAATGTATTTAACCTTTGCAGCTTCCCCAATCTAACTGGGATGAAGTATAGACAGTTAAGACTGGGGTTCCAGGAG
                         ||   |     | ||| |||  ||| | || ||    ||  ||   ||   | || | | ||   | | |    |||||||||||||||||||| |||| ||| ||||| |||||| | || || |||||||| || |||||||  || ||  | | |
tccaataaatcaattttttttttaaaaagaaaagccaatattcatgagtttaattctt---cttgatttggaaagttaatcacttcctgcttttt---tgttgcagAAAATGTATTTAATCTTTTCAGTTTCCCTAATCTAGCCGGAATAAAGTATAGGCAATTAAGACGTGGATTTGAAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttattaagttttgttatcaagactgattagtaccaagtctctactcgttgcagAAAATGTATTTAACCTTTGCAGCTTCCCCAATCTAACTGGGATGAAGTATAGACAGTTAAGACTGGGGTTCCAGGAG
                      gactgat  putative branch site (score: 3)
                                       tctctactc  putative PPT
     ttaagttttgttat  TA-rich tract