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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaaatttgttgctgaaagttgttctttctgctagtttgtactgctttcttttgacattattttcctaccaatagttagtgaacacctttttctgaatggaattgcagAAGTTTCCCTGAGACAATGTCTCCTGGTGCAAGAAATTCTAGGATTTTTGCTCTTGAAAACATGCTCACTACATCGTCTAGCACCCTGGTTTCTATGGCA

Basic information

species Vitis vinifera
transcript Vv18s0001g07550.t01
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA04G10080.1 (Glycine max), 3'ss of exon 21
gtgagaaatttgttgctgaaagttgttctttctgctagtttgtactgctttcttttgacattattttcctaccaata-gttagtgaacaccttttt--ctgaatggaattgcagAAGTTTCCCTGAGACAATGTCTCCTGGTGCAAGAAATTCTAGGATTTTTGCTCTTGAAAACATGCTCACTACATCGTCTAGCACCCTGGTTTCTATGGCA
  | |||||   | || |  |  |  | |   |      ||||||    ||  ||    |||||||| ||  ||||   ||  |||  | || | |  ||   ||    || ||   ||  ||     | |||||||| |||||||||||||||||||||||||| ||| ||||||||||  | || || |||   || || || ||||||  |
--gtgaaatgactagcagttaactaatttccttcaagaattgtacaatcttgatt----attatttttctggcaatctatttatgacaaactctctgacttgttgctgatgtagTGATTGTCCCACATCGATGTCTCCGGGTGCAAGAAATTCTAGGATTTTTGCCCTTCAAAACATGCTTTCGACTTCTTCTGCAACTCTTGTGTCTATGTTA

upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA02G37800.1 (Glycine max), 3'ss of exon 22
--gtgagaaatttgttgctgaaagttgttctttctg---ctagtttgtactgctttcttttgacattatttt---cctaccaatagttagtgaacacctttttctgaatggaattgc------agAAGTTTCCCTGAGACAATGTCTCCTGGTGCAAGAAATTCTAGGATTTTTGCTCTTGAAAACATGCTCACTACATCGTCTAGCACCCTGGTTTCTATGGCA
  |  | | || || |      ||   || | |  |    ||  |  | |   ||  || |   |  || ||     |   |||   || |  ||| | | | ||   | | |||||      ||   |  || ||   |||||||||| |||||||||||||| ||||| ||||| |||||||| ||| |  |||| || ||||  ||  || | || ||||||
gtgaaaaagatctgcttgcctcagccattttattagagtttacctcatccattttatttattgtacaatcttgtatttggaaatctataattgacaacatctgcttgcttggattgctaatctagTGCTGGCCTTGCATCAATGTCTCCGGGTGCAAGAAATTCAAGGATATTTGCCCTTGAAAAAATGATTGCTACTTCTTCTACAACATTGCTGTCAATGGCA

upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT5G60930.1 (Arabidopsis thaliana), 3'ss of exon 22
gtgagaaatttgttgctgaaagttgttctttctgctagtttgtactgctttcttttgacattattttcctaccaatagttagtgaacacctttttctgaatggaattgcagAAGTTTCCCTGAGACAATGTCTCCTGGTGCAAGAAATTCTAGGATTTTTGCTCTTGAAAACATGCTCACTACATCGTCTAGCACCCTGGTTTCTATGGCA
||| | |||  |   |||| |    || |   |   |      ||   ||  |  ||| ||   | || ||  || | ||||||       || |||||    |   ||||   |     ||| || |||||||||||||||||||| || |||||||||||||| || || |||||  | || || || ||||| || || || ||||||
gtgcgtaatcagg-actgacaaagattttgcata--aaccaagacca-ttcataatgaaata--tatcgta--aacaattagtg-----tcttctctgacaaaa---gcagCGTTCATGGTGACACCATGTCTCCTGGTGCAAGAAACTCAAGGATTTTTGCTCTGGAGAATATGCTTGCGACCTCTTCCAGCACTCTTGTCTCCATGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacattattttcctaccaatagttagtgaacacctttttctgaatggaattgcagAAGTTTCCCTGAGACAATGTCTCCTGGTGCAAGAAATTCTAGGATTTTTGCTCTTGAAAACATGCTCACTACATCGTCTAGCACCCTGGTTTCTATGGCA
 ttttgac  putative branch site (score: 3)
                 aatagtta  TA-rich tract