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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattcctactaaagatcatcaaattttatgtgagctgctcctttaattacttgttcttaattttactcatgctttatttctgattattctactttgtagCCTGATGTCTCAGCTCCTGGATTGAATATCCTTGCAGCCTGGTCTCCAGCAATTGAGAAAATGCATTTCAACATTCTCTCTGGAACTTCTATGGCTTGTC

Basic information

species Vitis vinifera
transcript Vv04s0044g01970.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g01970.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G22010.1 (Glycine max), 3'ss of exon 8
gtatattcctactaaagatcatcaaattttatgtgagctgctcctttaattacttgttcttaattttactcatgctttatttctgattattctactttgtagCCTGATGTCTCAGCTCCTGGATTGAATATCCTTGCAGCCTGGTCTCCAGCAATTGAGAAAATGCATTTCAACATTCTCTCTGGAACTTCTATGGCTTGTC---
 ||  | |  | |  |||     |||   ||| | ||    | | ||| |   || | ||| ||| |  |     | |   | || | ||  | ||  | |||| |||||| ||||||| ||| | |||||||||||||| ||||||||||||  ||  || |||   |||||||||||||| |||||||||||||||||||   
ctaagtccaaatttgagagaccaaaaaggtatataagtctattcattattattttttacttcattct--tggacttctgactgtgctcatgttgctccgcagCCCGATGTCACAGCTCCAGGACTAAATATCCTTGCAGCATGGTCTCCAGCAGCTGGAAACATG---TTCAACATTCTCTCAGGAACTTCTATGGCTTGTCCTC

upper sequence: Vv04s0044g01970.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA09G32760.1 (Glycine max), 3'ss of exon 9
gtatattcctactaaagatcatcaaattttatgtgagctgctcctttaattacttgttcttaattttactcatg---ctttatttctgattattctactttgtagCCTGATGTCTCAGCTCCTGGATTGAATATCCTTGCAGCCTGGTCTCCAGCAATTGAGAAAATGCATTTCAACATTCTCTCTGGAACTTCTATGGCTTGTC---
  |    |  | |  |||  |  ||| | |||   | |   | | ||| ||| || || || | || | || ||    | |   | || |  |  |  |   ||||| |||||| ||||||| ||| | |||||||||||||| ||||||||||||   |  || |||   |||||||||||||| |||||||| ||||||||||   
--aagcccaaatttgagag-acaaaaatgtattcaaacctattcatta-tta-ttattttttacttcattcctggacttctgactgtgctggtgttgatccatagCCCGATGTCACAGCTCCAGGACTAAATATCCTTGCAGCATGGTCTCCAGCAGCAGGAAATATG---TTCAACATTCTCTCAGGAACTTCGATGGCTTGTCCTC

upper sequence: Vv04s0044g01970.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G36000.1 (Glycine max), 3'ss of exon 9
-gtatattcctactaaagatcatcaaattttatgtgagctgctcctttaattacttg--ttcttaattttactcatgctttatttctgattattctactttgtagCCTGATGTCTCAGCTCCTGGATTGAATATCCTTGCAGCCTGGTCTCCAGCAATTGAGAAAATGCATTTCAACATTCTCTCTGGAACTTCTATGGCTTGTC
 || ||| |  |||  |    ||    |  ||| |  ||  ||   ||||| |  ||  || ||| | | ||| |  | | |    |   |   ||   ||||||||||||||  ||||||| ||||| || ||||||||||| |||||||||||    |    |||| | || || ||| | || |||||||||||| ||||||
agtttatccgaactgca--ctattc--tcgtatattcgccactgagttaataaaatgcttttttattctaacttaatcctgaacgatttctgg-ctgtattgtagCCTGATGTTACAGCTCCCGGATTAAACATCCTTGCAGCATGGTCTCCAGCCTCAGCTGGAATGAAGTTTAATATTGTATCAGGAACTTCTATGTCTTGTC

upper sequence: Vv04s0044g01970.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G09420.1 (Glycine max), 3'ss of exon 7
-gtatattcctactaaag-atcatcaaattttatgtgagctgctcctttaattac--ttgttcttaattttactcatgctttatttctgattattctactttgtagCCTGATGTCTCAGCTCCTGGATTGAATATCCTTGCAGCCTGGTCTCCAGCAATTGAGAAAATGCATTTCAACATTCTCTCTGGAACTTCTATGGCTTGTC
 || |   |  |||  |  ||  |   || |   || |     | | | || | |  || |  || |  ||| || ||    |||||||  | | ||     ||||||||||||  ||||||| ||||| || ||||||||||| |||||||||||    |    |||| | ||||| ||| | || |||||||||||| ||||||
agtctgcccaaactgcactattgtggtatatc-cgtcactgagttcataaaatgcctttatattttaacttaatcctgaacgatttctggctgtact-----gtagCCTGATGTTACAGCTCCCGGATTAAACATCCTTGCAGCATGGTCTCCAGCCTCAGCTGGAATGAAGTTCAATATTATATCAGGAACTTCTATGTCTTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattacttgttcttaattttactcatgctttatttctgattattctactttgtagCCTGATGTCTCAGCTCCTGGATTGAATATCCTTGCAGCCTGGTCTCCAGCAATTGAGAAAATGCATTTCAACATTCTCTCTGGAACTTCTATGGCTTGTC
                                 ttctgat  putative branch site (score: 3)
                                          ttctacttt  putative PPT
                            tttatttctgattatt  TA-rich tract