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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgttaagtgtggtgacagtagtgctagcgatctgattgagatatatgccacagtctggtgattttattggcttgtgcagATCAAAAAGTCGAATTTGGAGGTGCTTCTGCAAAGACATGTTCAAATGGCTGCTGAGATTAAAAATCTCGACACAGACTTGCAAATGCTAGTCTATGAAA

Basic information

species Arabidopsis thaliana
transcript AT4G02030.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G02030.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os03g52770.1 (Oryza sativa), 3'ss of exon 1
--------------gtttgtgttaagtgtgg-tgacagtagtgctag-cgatctgattgagatatatgccacagtctggtgattttattggcttgtgcagATCAAAAAGTCGAATTTGGAGGTGCTTCTGCAAAGACATGTTCAAATGGCTGCTGAGATTAAAAATCTCGACACAGACTTGCAAATGCTAGTCTATGAAA
                | |||  |    ||  | | |||   ||| | | || ||  |     | |    |  |  |  |  | || |  | || |  || |  || | || ||| |||| |  ||| | || || |||||  | ||||| |||||||| || ||||| || |||||||| ||||||||||| ||||| |
tattgaaaaagtagcatagtgggacacatgaatcagagtttagcttgtcaatttggatattggagagatgaatgcttacttctgttttgtgtttttttagGTGCAACAATCAAATCTGGAAGCTCTTTTACAGAGGCATGTGAAGATGGCCGCTGAGATCAAGAATCTGGATACAGACTTACAAATGCTAGTATATGAGA

upper sequence: AT4G02030.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G01610.1 (Glycine max), 3'ss of exon 1
------------------------------gtttgtgttaagtgtggtgacagtagtgctagcgatctgat-tgagatatatgccacagtctggtgattttattggcttgtgcagATCAAAAAGTCGAATTTGGAGGTGCTTCTGCAAAGACATGTTCAAATGGCTGCTGAGATTAAAAATCTCGACACAGACTTGCAAATGCTAGTCTATGAAA
                                |     |    ||  |    || ||  | |   ||  |  |||  |  |      ||  ||      | | ||  || |||||    | ||||| |||||||| |  ||||| ||| | || |||  |||||||||||| || || ||||||||||| ||||||||||||||||| || || |
gtgaattcttcttcccctcctctctcaattaatcactctcgtcgttttcgtcgtcgtcgtcgtcgtcgaagatgaacttcaatttggagcatgaatgaatgaatgaattatgcagGCACACAAGTCCAATTTGGAAGGCCTTCTACAACGCCACGTTGCAATGGCTGCTGAAATCAAGAATCTCGACACCGACTTGCAAATGCTAGTTTACGAGA

upper sequence: AT4G02030.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G01660.1 (Glycine max), 3'ss of exon 1
------------------------------gtttgtgttaagtgtggtgacagtagtgctagcgatctgattgagatatat-gccacagtctggtgatt---ttattggcttgtgcagATCAAAAAGTCGAATTTGGAGGTGCTTCTGCAAAGACATGTTCAAATGGCTGCTGAGATTAAAAATCTCGACACAGACTTGCAAATGCTAGTCTATGAAA
                                |     |    |  ||   ||  |  || |   |  ||    || |  |  |   | | |  | | |   | | ||  || |||||    | ||||| |||||||| |  || || ||| | || ||| ||||||| ||||| || || ||||||||||| |||||||||||||| || || || |
gtaaattcttcttccccttctccctcaattagtcactctcgtcgaagtcgaagacgaacttgaatttggagcacgaaacctcacttgattttattaaatgaatgaatgaattatgcagGCACACAAGTCCAATTTGGAAGGCCTGCTCCAACGCCACGTTGAAATGGCAGCTGAAATCAAGAATCTCGACACCGACTTGCAAATGCTGGTTTACGAGA

upper sequence: AT4G02030.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv07s0005g01440.t01 (Vitis vinifera), 3'ss of exon 1
----------gttt-gtgttaagtgtggtgacagtagtgctagcgatctgattgagata----tatgccacagtc-tggtgattttattggcttgtgcagATCAAAAAGTCGAATTTGGAGGTGCTTCTGCAAAGACATGTTCAAATGGCTGCTGAGATTAAAAATCTCGACACAGACTTGCAAATGCTAGTCTATGAAA
          ||   |   | ||  ||||  |  |  ||||  |     | ||   |||    | |   | | |  |  |   || ||| |  |||| ||    |||| || |||||||| |  ||||| |||||||||||| ||||||| |||||||| |||||||| ||||| |||||||| ||| |||| |||||||
gaaggtaggggtccagcagtgagcttggtatccttgttgcttacctgtagttttctataatcttcttatataataatatttgcttcatttgtatgtgaagGCACAAAAATCAAATTTGGAAGGACTTCTTCAAAGACATGTTGAAATGGCAGCTGAGATAAAAAATCTTGACACTGACTTGCAGATGTTAGTGTATGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagcgatctgattgagatatatgccacagtctggtgattttattggcttgtgcagATCAAAAAGTCGAATTTGGAGGTGCTTCTGCAAAGACATGTTCAAATGGCTGCTGAGATTAAAAATCTCGACACAGACTTGCAAATGCTAGTCTATGAAA
     atctgat  putative branch site (score: 4)
                                  tgattttatt  TA-rich tract