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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtatattctcccaacatgtatttcatgatctaatcacgttcactgtgctgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG

Basic information

species Vitis vinifera
transcript Vv08s0007g08690.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os03g24220.2 (Oryza sativa), 3'ss of exon 5
gtagtatattctcccaacatg-tatttcatgatctaatcacgttcactgtgctgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
||    || | |  || |    | |||| |   ||| |     ||    || |  |         ||  || |    | | ||||| || |||||||| || ||| | ||||| |||||||| |||||| |||| || ||||| ||||| ||||| |||||||||||||| |||||||| || |
gtgac-tactatttcacctccctgtttcttagactactttatctcctcatgttatataca-----ctaaatgtcctatattcagGTTCCATTTGCTCGCTCGTCATTGAATCATGATGATGTATTTATCTTGGATACGGAAAAGAAAATATATCAATTCAATGGTGCAAACTCCAATATTCAAG

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G047310_T02 (Zea mays), 3'ss of exon 5
gtagtatattctcccaacatgtatttcatgatctaatcacgttcactgtgctgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
   ||||||       ||     |         || | ||  |  | |  |   |  ||| | ||||| || |  |||| ||||| ||||| || ||||| ||| |||| || |||||||||||| || | || || |||||||| || || ||||| |||||||| || ||||||||||| |
---gtatatgagattcacccccttactgcacattatttacaatttcagctcaataattggac-cctgccttct--ttgttcagGTTCCCTTCGCCCGGTCGTCATTAAACCATGATGATGTGTTTGTCTTAGATACTGAAAATAAGATATACCAGTTTAATGGTGCTAACTCCAATATCCAAG

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G180988_T01 (Zea mays), 3'ss of exon 5
----gtagtatattctcccaacatgtatttcatgatctaatcacgttcactgtgctgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
    |    | |  | |||    || |  ||||   | | |   | ||| |    ||  | ||     |||| || |  |||| ||||| ||||| || ||||| ||| |||| || |||||||||||| || | ||  | |||||||| || || ||||| |||||||| || ||||||||||| |
gtatgggagacacacccccttgctgcacatcatttacaatttcagctcaata-attgtggatg-----ctgccttct--ttgttcagGTTCCCTTCGCCCGGTCATCATTAAACCATGATGATGTGTTTGTCTTAGATGCTGAAAATAAGATATACCAGTTTAATGGTGCTAACTCCAATATCCAAG

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 5
---------------gtagtatattctcccaacatgta--tttcatgatctaatcacgttcactgtgctgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
               | |  || |||||    ||||||  |||||   ||    ||| |||  ||  ||  |  ||     |    ||||| || |||||||||| ||||| ||||||||| | ||||| |||||||| || ||||| |||||  | ||||| |||||||| |||||||||||||| |||||||||||||
gtcagaataaaacaggcacaatgttctctattcatgtacttttcaaattcagtgcacattcgttgc-ctaaaaatgtgatacaaagttttgcttatgcagGTCCCTTTTGCACGGTCTTCATTGAATCATGATGATGTATTCATCCTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAACTCCAATATCCAGG

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 4
--gtagtatattctcccaacatgtatttcatgatctaatcacgttcactgtgctgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
   |||| |  |||    |  |   |||||    |    ||| |||| ||  ||  |  ||     |    ||||  || ||||||| || ||||| ||||||||||| ||||| |||||||| || ||||| |||||  | ||||| |||||||| |||||||||||||| |||||||||||||
gcatagtgttctctattcatgtacttttcaaatgcagtgcacattcattg-actaaaaatgtgatacaaagttttccttatgcagGTTCCTTTTGCACGGTCTTCACTGAATCATGATGATGTATTCATCCTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAACTCCAATATCCAGG

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 3
gtagtatattctcccaacatgtatttcatgatctaatcacgttcactgtgc-tgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
   ||||| | | |     | |  ||||||| |     |  |||| || || || || | |       ||||||||||    ||||||| |||||  |||||||| | || || || ||||| || || || |||||  | ||||| |||||||| ||||||||||||||||||||||| ||||
---gtatagtgttctc---tattattcatgaacgtcataaattcagtgcgcatgaagtttg------acattttggtttgatagGTCCCTTTTGCAAGGTCTTCATTGAACCATGAAGATGTATTCATACTAGACACTCAGAATAAGATTTATCAATTCAATGGTGCAAATTCCAATATTCAGG

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G21350.2 (Glycine max), 3'ss of exon 4
gtagtatattctcccaacatgtatttcatgatctaatcacgttcactgtgc-tgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
   ||||| ||| |     |||  ||||||| ||       |||| |  || || || | |       ||||||| ||   |||||||| |||||  |||||||  | || || || ||||| || || || || || || || || |||||||| ||||||||||||||||||||||| ||||
---gtatagtcttctc---tgttattcatgaacttcattaattcagtacgcatgaagtttg------acattttgctttgacagGTCCCTTTTGCAAGGTCTTCGTTGAACCATGAAGATGTATTCATACTAGATACTGAGAACAAGATTTATCAATTCAATGGTGCAAATTCCAATATTCAGG

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 5
-------gtagtatattctcccaacatgtatttcatgatctaatcacgttcactgtgctgcagctggt-cacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
         | | || |||||    ||       |        | |    || ||| |  || ||  | |  |||    |   || ||||||| || ||||| || || ||||| ||||| |||||||| |||||| ||||||| ||  | || || ||||||||||||||||||||||| || || ||||
gttttaaccattgtactctccttgtattagaacgagtgaacggtgattaccaatgtacatcaactttttcttctgttcctcttttttgcagGTTCCTTTTGCCCGCTCATCACTGAATCATGATGATGTATTTATCTTGGACACCGAGGAAAAGATCTATCAGTTCAATGGTGCAAATTCAAACATTCAGG

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 6
gtagtatattctcccaacatgta----tttcatgatctaatcacgttcactgtgctgcagctggtcacctg-cattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
||  | | | || |  |  | ||    | | |   |||  || | |  | |||     |  |    || |  |  |||  || || |||| || ||||| || || || || ||||| ||||||||||||||| |||||||  |  | || ||||||||||| |||||||||||||| |||||||| |
gttttctttgctgcagatttttagaagtgttacactctcttcgcatg-agtgtttaatatgtatatacttatctcttttcttttgtagGTTCCTTTTGCACGCTCATCTCTGAATCATGATGATGTGTTTATCTTGGACACCAAGGAAAAGATTTATCAGTTTAATGGTGCAAATTCAAATATCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatctaatcacgttcactgtgctgcagctggtcacctgcattttggttgtgcagGTCCCCTTTGCTCGGTCTTCACTAAATCACGATGATGTGTTTATCCTGGACACAGAAAATAAAATTTATCAGTTCAATGGTGCAAATTCCAATATCCAGG
  atctaat  putative branch site (score: 3)
                                        atttt  TA-rich tract