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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaacatctacctcttttcaacaccgaggatttgaatttagtgtaacctatgatatatgtctctgtttactgattcatagtcttgcttccataagtttgctcttatattacctttctttgtagCCGGAATTGTTATCGAGGCAAAAAACTGGCCTACCTTCTTCCCCCTTATCCACCATGACATTGCAAATGAAATTCTGGTTCGTCTCCAAAGGCTACAGTA

Basic information

species Arabidopsis thaliana
transcript AT1G11180.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G11180.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G174730_T01 (Zea mays), 3'ss of exon 4
gtaaaacatctacctcttttcaacaccgaggatttgaatttagtgtaacctatgatatatgtctctgtttactgattcatagtcttgcttccataagtttgctcttatattacctttctttgtagCCGGAATTGTTATCGAGGCAAAAAACTGGCCTACCTTCTTCCCCCTTATCCACCATGACATTGCAAATGAAATTCTGGTTCGTCTCCAAAGGCTACAGTA
                  |  |     |   |    ||        | |||   | | || |   |  |||   |||  |||| ||   ||||  |   |  | | ||    | ||| |||  ||| ||  |||| || || |  |||||||||||| |||| |||||||| |||||||| |||||| | |||||||| |   | | ||| |||||| | |||||
----------------catagagggttggataccctaaccctaaacaccctg-aagaaatatgggttgttatatatttttagtttt---tccactaacct-ttgtcat----cttttattttcagCTGGCGTTGTGATAGAAGAGAAAAACTGGCCTCCCTTTTTCCCCCTCATCCACCACGACATTTCCAATGAAATACCTATCCATCTACAAAGGATGCAGTA

upper sequence: AT1G11180.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G100809_T01 (Zea mays), 3'ss of exon 4
gtaaaacatctacctcttttcaacaccgaggatttgaatttagtgtaacctatgatatatgtctctgtttactgattcatagtcttgcttccataagtttgctcttatattacctttctttgtagCCGGAATTGTTATCGAGGCAAAAAACTGGCCTACCTTCTTCCCCCTTATCCACCATGACATTGCAAATGAAATTCTGGTTCGTCTCCAAAGGCTACAGTA
                      |  | |  |  |||    | ||  |||       | |  |||| |||    | |  ||| | | |      |    |  |  ||||  |    |   ||  ||| || ||||| || || |  ||||| |||||| |||| |||||||| ||||||||||||||| | ||||| || |   | | ||| |||||| | || ||
--------------------agaatcagttggattggtggtggtaaaacaccctgaagaaatctcggtt----gctatata-tttcgagcttgtgcactaacctttattatcttctatctttcagCTGGCATTGTGATAGAAGAGAAAAATTGGCCTCCCTTTTTCCCCCTCATCCACCATGACATTTCTAATGAGATACCTATCCATCTACAAAGGATGCAATA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgattcatagtcttgcttccataagtttgctcttatattacctttctttgtagCCGGAATTGTTATCGAGGCAAAAAACTGGCCTACCTTCTTCCCCCTTATCCACCATGACATTGCAAATGAAATTCTGGTTCGTCTCCAAAGGCTACAGTA
 tactgat  putative branch site (score: 2)
                                     tattacctttcttt  putative PPT
                                tcttatatta  TA-rich tract