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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgttggctccctgtttctctgctttctagtcctcttggacttccttgttctaatacactgtcttgactctcagGTTATAAGGCCATTCATATTGAGGAGGAAGAAAGATGAGGTGGAAAAGTACCTTCCTGGGAAAACCCAGGTCATATTGAAATGTGATATGTCAGCCTGGC

Basic information

species Vitis vinifera
transcript Vv05s0020g02960.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os05g05230.1 (Oryza sativa), 3'ss of exon 9
--------------gtaagtgttggctccctgtttctctgctttctagtcctcttggacttcctt-------gttctaatacactgtcttgact-ctcagGTTATAAGGCCATTCATATTGAGGAGGAAGAAAGATGAGGTGGAAAAGTACCTTCCTGGGAAAACCCAGGTCATATTGAAATGTGATATGTCAGCCTGGC
              ||  |  |         |||   ||  ||  || |     || |  |   |        |||   ||| || | ||  || | |||||  |  | |||||  |  ||||||||||||||||||| |||||||| || ||||||| |||||| || || ||| | || ||||| ||||| || ||||
gcagcatgcaaagtgtgtggctaaaacatgagttaggctaattattaatatatgtgaatatttatttaaataattccgttactctttgttctctgcacagGTGCTGCGTCCATTTTTGCTGAGGAGGAAGAAAGATGAAGTGGAAAAATATCTTCCTGTGAAAACACAAGTAATACTCAAGTGTGACATGTCTGCTTGGC

upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G39630.1 (Glycine max), 3'ss of exon 7
-----------------------------------------------------------------------------------------gta-agtgttggctccctgtttctctgctttctagtcctcttggacttccttgttctaatacactgtcttgactctcagGTTATAAGGCCATTCATATTGAGGAGGAAGAAAGATGAGGTGGAAAAGTACCTTCCTGGGAAAACCCAGGTCATATTGAAATGTGATATGTCAGCCTGGC
                                                                                          || |   |   |   ||  ||      | ||| |  || ||| ||||| ||   || ||    |   ||   ||| |||| |||||||| |||||||| || ||||| ||||||||||||||||| | ||||||||||||| | ||||||||| | ||||||||||||||||||||||
gtgcgattctcaaccaagcaagacacttattttttatatctcaaaattgtgtaaaaattcaattgtggcttgtgacgtagaatctttcattatatcataaaccttctagtttctaattctcttgctcttttgaacttcttt---ctgatgtgtttcattccatcttagGTAATAAGGCCCTTCATATTAAGAAGGAAAAAAGATGAGGTGGAAAAATTCCTTCCTGGGAAATCTCAGGTCATACTCAAATGTGATATGTCAGCCTGGC

upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 10
gtaagtgttggctccctgtttctctgctttctagtcctcttggacttccttgttctaatacactgtcttgactctcagGTTATAAGGCCATTCATATTGAGGAGGAAGAAAGATGAGGTGGAAAAGTACCTTCCTGGGAAAACCCAGGTCATATTGAAATGTGATATGTCAGCCTGGC
||   | |       ||  ||      | ||| |  || ||  ||||| ||   || ||    |   ||   ||| |||| |||||||| |||||||| || ||||| ||||||||||||||||| |  ||||||| |||| | ||||||||| | ||||||||||||||||||||||
gtgcatttctctcttctagtttgtaattctcttgctcttttcaacttcttt---ctgatgtgtttcattccatcttagGTAATAAGGCCCTTCATATTAAGAAGGAAAAAAGATGAGGTGGAAAAATTTCTTCCTGTGAAATCTCAGGTCATACTCAAATGTGATATGTCAGCCTGGC

upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G00640.1 (Glycine max), 3'ss of exon 10
gtaagtgttggctcc-ctgtttctctgctttctagtcctcttggacttccttgttctaatacactgtcttgactctcagGTTATAAGGCCATTCATATTGAGGAGGAAGAAAGATGAGGTGGAAAAGTACCTTCCTGGGAAAACCCAGGTCATATTGAAATGTGATATGTCAGCCTGGC
      ||| ||| | ||  ||   |  |||||     |  |  || || || |  | | | |   |    ||| | |||| |||||||| ||||||||||| ||||| ||||||||||||||||| |  |||||| | ||| | ||||| ||| | ||||||||  ||||||||||||
------gttagcttcgctcgtttcttattttctttcttttgtcaacatcattctgatga-atatcattcacacttttagGTGATAAGGCCCTTCATATTGAGAAGGAAAAAAGATGAGGTGGAAAAATTTCTTCCTAGTAAATCTCAGGTTATACTCAAATGTGACTTGTCAGCCTGGC

upper sequence: Vv05s0020g02960.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G06010.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagtgtt--ggctccctgtttctctgctttcta-----gtcctcttggacttccttgttctaatacactgtcttgactctcagGTTATAAGGCCATTCATATTGAGGAGGAAGAAAGATGAGGTGGAAAAGTACCTTCCTGGGAAAACCCAGGTCATATTGAAATGTGATATGTCAGCCTGGC
||  ||  |   |||  || |   |    ||  ||      |     || |||   ||  | |||| |||| | |  ||| ||||||||||||||| || ||| |||| ||||| || || || || || || | ||||||||| || || |||||||||||||| ||||||||||| || ||||
gtgggttctctagctgtctttccttaaatttcttatcaaaatttgtatgcactgttttaatgtaattcactctgtc-actttcagGTTATAAGGCCGTTTATACTGAGAAGGAAAAAGGACGAAGTAGAGAAATTCCTTCCTGGAAAGACACAGGTCATATTGAAGTGTGATATGTCGGCGTGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgctttctagtcctcttggacttccttgttctaatacactgtcttgactctcagGTTATAAGGCCATTCATATTGAGGAGGAAGAAAGATGAGGTGGAAAAGTACCTTCCTGGGAAAACCCAGGTCATATTGAAATGTGATATGTCAGCCTGGC
                                       ctgtctt  CT-rich tract
                             ttctaata  TA-rich tract