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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatctcctagtttcgttcctctctgttctctcatatactgcatataagagacgttctctgttcttagcaactttaagtatgtagtctgacaattttctgtttgtcatttgtgacagGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT

Basic information

species Arabidopsis thaliana
transcript AT3G60860.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os03g14260.2 (Oryza sativa), 3'ss of exon 7
gtaagaatctcctagtttcgttcctctctgttctctcatatactgcatataagagacgttctctgttcttagcaactttaagtatgtagtctg-acaattttctgtttgtcatt-tgtgacagGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT
            ||  | |    ||  || |  ||  || | |    |||      | | || |  | | |   | ||  ||||| ||| | | | |   || |||||  | || | |   ||||| || || ||||||||||| |||||||| ||||||||||| ||||| ||  | || | ||| ||||| || ||||| |||||||||||||| || |||
-----------gtaagtacagggcttcctatattcagat-tgcaatgtatttccc-catacttttctttgatgtatttatagtatataggcagtatatgattgtgtttccctttctcttgtagGCACTACAATATGAATCGCATCAGGCTTGTCTGGTCAAGCATATGGCATGTCTTGTCTGATTTTTTTGTTACAATTGGCTGCTCAGAGAATCTCTCAATT

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G058870_T01 (Zea mays), 3'ss of exon 7
gtaagaatctcctagtttcgttcctctctgttctctcatatactgcatataagagacgttctctgttcttagcaactttaagtatgtagtctgacaattttctgtttgtcatttgtgacagGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT
||||| |       | ||  ||  ||  |  |   |   |   ||  | |         | |  | |||||   ||    |||   |  | |     |||| | |||| | | |     |||||||| || ||||| ||||| || |||||||||||||| || ||||| ||  | || | ||| ||||| |||||||| |||||||| |||||||| || 
gtaaggaatctgaggctttatta-tcattactacattgcaatgtgtttttttacatttctgttcggtcttatagac----agtgcatgatttt----ttttttttttgccctctt--gtagGCATTACAATATGAACCGCATCAGACTTGTTTGGTCAAGTATATGGCATGTCTTGTCTGATTTTTTTGTCACCATTGGCTGCTCAGAAAATCTTTCAATC

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G45360.1 (Glycine max), 3'ss of exon 9
gtaagaatctcctagtttcgttcctctctgttctctcatatactgcatataagagacgttctctgttcttagcaactttaagtatgtagtctgacaattttctgtttgtcatttgtgacagGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT-----------------------------------------------------------
                                                                              ||| |||   || ||||  |    || || |  | ||| ||||||| ||||| ||||| ||||| |||||||| ||||||||||| ||||| || || |||| ||||||||| |||||||| || || |  || ||||| |||                                                           
------------------------------------------------------------------------------taattatactgtttgactttgaggtgattat--tctgtaacaggcactataatatgaaccgcatcaggcttgtgtggtcaagcatatggcatgttctctcagATTTCTTTGTAACCATTGGCTGTTCTGGAAACCTTTCAATTGCAATTTTTGCAATGGATTCCTTGCGTCAGTTGTCAATGAAATTTCTGGAGCGGGAGGA

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G40480.1 (Glycine max), 3'ss of exon 7
gtaagaatctcctagtttcgttcctctctgttctctcatatactgcatataagagacgttctctgttcttagcaactttaagtatgtagtctgacaattttctgtttgtcatttgtgacagGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT
                  | ||    | | |  | |  |     ||   |||   |   ||| | | |   ||  | |||  ||| | || ||||  |     | || |  | ||| ||||||| ||||| ||||| ||||| |||||||| ||||||||||| ||||| || || || | ||||||||| |||||||| || || |  || ||||| |||
---------------gagcattaggtt-tatgattttgtgattcgcgattaattaa---tctttatacactgctgccttagttatattgtttgactttgaggggattat--tctgtaacagGCACTATAATATGAACCGCATCAGGCTTGTATGGTCAAGCATTTGGCATGTTCTCTCTGATTTCTTTGTAACCATTGGCTGTTCTGGAAACCTTTCAATT

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA01G34560.1 (Glycine max), 3'ss of exon 8
gtaagaatctcctagtttcgttcctctctgttctctcatatactgcatataagagacgttctctgttcttagcaactttaagtatgtagtctgacaattttctgtttgtc------att-tgtgacagGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT
                                   |     |  ||||  |  | | | |     | | |      || | || | ||  || || |  |  |||||| |      ||| ||| ||||||| ||||| ||||| ||||| |||||||| ||||||||||||||||| || || || | ||||||||| || ||||| || || |  || ||||| |||
---------------------------acaaatgtttgggcagagcatcaagcatatgattatgttgcatgattgattgatgtttatatgct-actacctgttgtttgactcgaatattatgtaacagGCACTATAATATGAACCGCATCAGGCTTGTGTGGTCAAGCATCTGGCATGTTCTCTCTGATTTCTTTGTAACTATTGGCTGTTCGGCAAACCTTTCAATT

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 7
gtaagaatctcctagtttcgttcctctctgttctctcata-tactgcatataagagacgttctctgttcttagcaactttaagtatgtagtctgacaattttctgtt--tgtcatt-tgtgacagGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT
                            ||||    || |  |      ||| ||    |  |   |  ||      | |   ||||  | ||  | ||| ||||      | ||| ||| ||||||| ||||| ||||| ||||| |||||||| ||||||||||||||||| || || || | ||||||||| || ||||| || |  |  || ||||| |||
-----------------------acaaatgtttgggcagagcatcaagcatatgat-tatgttgcatcattgattgatgtttatatgctg-ctacctattgtctgacacgattattatgtaacagGCACTATAATATGAACCGCATCAGGCTTGTGTGGTCAAGCATCTGGCATGTTCTCTCTGATTTCTTTGTAACTATTGGCTGTTTGGCAAACCTTTCAATT

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G45340.1 (Glycine max), 3'ss of exon 7
gtaagaatctcctagtttcgttcctctctgttctctcatatactgcatataagagacgttctctgttcttagcaactttaagtatgtagtctgacaattttctgtttg------tcatt-tgtgacagGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT
                           |       |     |  ||||  |  | | | |     | | |      || | || | ||  ||| | || |  ||||||      | ||| ||| ||||||| ||||| ||||| ||||| |||||||| ||||||||||||||||| || || || | ||| ||||| || ||||| || || |  || ||||| |||
---------------------------ccaaatgtttgggcagagcatcaagcatatgattatgttgcatgattggttgatgtttatatgctg-ctatctgttgtttgacccgattattatgtaacagGCACTATAATATGAACCGCATCAGGCTTGTGTGGTCAAGCATCTGGCATGTTCTCTCTGATTTTTTTGTAACTATTGGCTGTTCGGCAAACCTTTCAATT

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 7
gtaagaatc--tcctagtttcgttcctctctgttctctcatatactgc--atataagagacgttctctgttcttagcaactttaagtatgtagtctgacaattttctg-----tttgtcatttgtgaca--gGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT
||| |||||  ||  | |||   |  |   |||| |  ||||   |     |     |    || | | |  ||  || ||   | ||   | | ||  ||  ||||      |||||  | | | |||  |||| ||||||||||| || || |||||||| ||||||||||||||||| || || |||| ||||||||| |||||||| || |||||||| ||||| |||
gtatgaatcattctcaatttgtcttgttcatgttttagcataccatattagtgcttcatttattatttatatttgtcagctgctattaaaaattttgctaaaattctaagtgatttgttttcttttacacagGCACTATAACATGAACCGTATCAGGCTTGTGTGGTCAAGCATCTGGCATGTACTCTCAGATTTCTTTGTAACCATTGGCTGTTCAGAGAACCTTTCAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttagcaactttaagtatgtagtctgacaattttctgtttgtcatttgtgacagGCATTATAACATGAATCGCATAAGGCTTGTTTGGTCAAGCATCTGGCAAGTGCTATCAGGTTTCTTTGTGACCATTGGATGCTCAGAGAATCTTTCTATT
                      gtctgac  putative branch site (score: 3)
          tttaagtat  TA-rich tract