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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtttatcatgctgatggttaagaggtctttgcttcacataaagcctgcagatttttattgacctattattttttcccttttttttgttattagATATGTGGTGGAAAGGATGGATGCTGACCTCTGGGAGAAAGTTCTTAGTCCCGATAACGAGTATAGAAGGCAACTAATTGATCAAGTTGTATCTACTGCT

Basic information

species Vitis vinifera
transcript Vv06s0004g06860.t01
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GRMZM2G111355_T01 (Zea mays), 3'ss of exon 3
------gtttgtttatcatgctgatggttaagaggtctttgcttcacataaagcctgcagatttttattgaccta----ttattttttcccttttttttgttattagATATGTGGTGGAAAGGATGGATGCTGACCTCTGGGAGAAAGTTCTTAGTCCCGATAACGAGTATAGAAGGCAACTAATTGATCAAGTTGTATCTACTGCT
        |  ||| |  || ||    ||  ||   || |  |  | ||     |  ||  | | |   ||| ||    ||  | || |  || |||    |   || |||||||| || || ||||||| ||| || ||||| |||||||||   ||||| || || |||||||||||||| ||||| ||||| || || ||||| 
gtatgtaataatttttattgttgtgacttgtgacacctgt-ttcaagatgtccacatcaattgtctgacgacttacatgttcatattgcatttatttaaaatgacagGTATGTGGTTGAGAGAATGGATGGTGATCTATGGGATAAAGTTCTTCAGCCCGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACTGCA

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GRMZM2G325285_T01 (Zea mays), 3'ss of exon 12
------gtttgtttatcatgctgatggttaagaggtctttgcttcacataaagcctgcagatttttattgaccta----ttattttttcccttttttttgttattagATATGTGGTGGAAAGGATGGATGCTGACCTCTGGGAGAAAGTTCTTAGTCCCGATAACGAGTATAGAAGGCAACTAATTGATCAAGTTGTATCTACTGCT
        |  ||| |  || ||    ||  ||   || |  |  | ||     |  ||  | | |   ||| ||    ||  | || |  || |||    |   || |||||||| || || ||||||| ||| || ||||| |||||||||   ||||| || || |||||||||||||| ||||| ||||| || || ||||| 
gtatgtaataatttttattgttgtgacttgtgacacctgt-ttcaagatgtccacatcaattgtctgacgacttacatgttcatattgcatttatttaaaatgacagGTATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCCGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACTGCA

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 21
--gtttgtttatcat-gctgatggttaagaggtctttgcttcacataaagcctgcagatttt---tattgacctatt--attttttcccttttttttgttatt--agATATGTGGTGGAAAGGATGGATGCTGACCTCTGGGAGAAAGTTCTTAGTCCCGATAACGAGTATAGAAGGCAACTAATTGATCAAGTTGTATCTACTGCT
   | |  ||||  | | |  || |   || | ||||  ||      |  |||  | || ||    | || |    |   |  | || | |   |||   |||  ||||||||||| || || ||||||| ||| || ||||| |||||||||   || || || || |||||||||||||| ||||| ||||| || || || || 
gtatataattatttttgttcctgttactgatgccttttgtttgttccagtcctctatatattgagcaatggctcgcttggtcatgtcacataaatttaaaatttcagATATGTGGTTGAGAGAATGGATGGTGATCTGTGGGATAAAGTTCTTCAGCCTGAGAATGAATATAGAAGGCAACTCATTGACCAAGTGGTTTCGACCGCA

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 23
gtttgtttatcatgctgatggttaagaggtctttgcttcacataaagcctgcagatttttattgacctattattttttcccttttttttgttattagATATGTGGTGGAAAGGATGGATGCTGACCTCTGGGAGAAAGTTCTTAGTCCCGATAACGAGTATAGAAGGCAACTAATTGATCAAGTTGTATCTACTGCT
|| ||| ||  || ||  |  |||||  ||| |||  |  |||        ||  ||  | | |  |  | ||  | |  |||||| ||  ||| |||||||| |||||| | ||| ||||||||||||||||||||||||||| |||||| || |||| |||||| ||  | ||||||||||| || || ||||||
gtgtgtgtactatcct--tcattaaggtgtcattgtatttcat--------catgttagtttgggacactcatgctatttctttttgtttgtatcagATATGTTGTGGAACGTATGAATGCTGACCTCTGGGAGAAAGTTCTTAATCCCGAGAATGAGTTTAGAAGACAGTTGATTGATCAAGTGGTGTCCACTGCT

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 21
gtttgtttatcatgctgatggttaagaggtctttgcttcacataaagcctgcagatttttattgacctattattttttcccttttttttgttattagATATGTGGTGGAAAGGATGGATGCTGACCTCTGGGAGAAAGTTCTTAGTCCCGATAACGAGTATAGAAGGCAACTAATTGATCAAGTTGTATCTACTGCT
|| ||| ||   | ||  |  |||||  ||| |||  |  ||||| |   |        | | |  |  | || || |  |||  | ||  ||| |||||||| |||||  | ||||||||||||||||||||||||||||||| ||| || || ||||  ||||||||  | ||||||||||| || || ||||||
gtgtgtgtactgtcct--tcattaaggtgtcattgtatttcataatgttag--------tttgggacactcatgttatttcttgatgtttgtatcagATATGTCGTGGAGCGTATGGATGCTGACCTCTGGGAGAAAGTTCTTAATCCTGAGAATGAGTTCAGAAGGCAGTTGATTGATCAAGTGGTGTCCACTGCT

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 23
gtttgtttatcatgctgatggttaagaggtctttgcttcacataaagcctgcagatttttatt---gacctattattttttcccttttttttgttattagATATGTGGTGGAAAGGATGGATGCTGACCTCTGGGAGAAAGTTCTTAGTCCCGATAACGAGTATAGAAGGCAACTAATTGATCAAGTTGTATCTACTGCT
   ||| ||   ||    |  | | || ||  |   |  |  | |    | || | |  ||||      |  | || || |    |  | ||  | | |||||||| ||| ||||||||||  |||||||||||||||||||||||| ||| || || |||| |||  | ||  | ||||||||||| || |||||||||
--gtgtgtactgtgagcttcatcaggaagttgtcattgtatttcatattttcatagtgctattctgagacactcatgttgttttctaatctttgtgtcagATATGTTGTGCAAAGGATGGACTCTGACCTCTGGGAGAAAGTTCTTAATCCTGAGAATGAGTTTAGGCGACAGTTGATTGATCAAGTGGTGTCTACTGCT

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 23
gtttgtttatcatgctgatggttaagaggtctttgcttcacataaagcctgcagattttta--ttgaccta-ttattttttcccttttttttgttattagATATGTGGTGGAAAGGATGGATGCTGACCTCTGGGAGAAAGTTCTTAGTCCCGATAACGAGTATAGAAGGCAACTAATTGATCAAGTTGTATCTACTGCT
   ||| ||   ||    |    | || ||  |   |  |  | |    |  | | |  ||   |||   | | || || |    |  | ||  | | |||||||| || |||||||||||  | |||||||||||||||||||||| ||| || || |||| |||| | |   | ||||||||||| || |||||||||
--gtgtgtactgtgagcttcagcaggaagttgtcattgtatttcatatttttataatgctagtctgagacactcatgttattttctaatgtttgtgtcagATATGTTGTCGAAAGGATGGACTCCGACCTCTGGGAGAAAGTTCTTAATCCTGAGAATGAGTTTAGACGACTGTTGATTGATCAAGTGGTGTCTACTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaagcctgcagatttttattgacctattattttttcccttttttttgttattagATATGTGGTGGAAAGGATGGATGCTGACCTCTGGGAGAAAGTTCTTAGTCCCGATAACGAGTATAGAAGGCAACTAATTGATCAAGTTGTATCTACTGCT
                 tattgac  putative branch site (score: 2)
             tttttattgacctatt  CT-rich tract
                         tattattttttccctt  TA-rich tract