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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagaatagaaggatttaggaatttagttaattctgtatctgtatttatagaacattttgttgaggttctaaagcttgatgtttcttttctttattgttattattattattattattttggtttggttttcagATTGATCGGATCTCGGCAATTGCTGCAAAGTATGTTGGCAAACCAGTAGTGAACTATCCTCTTATTCCTCAGGTTCCCACCCGTCCCCTCGATCTAGGGG

Basic information

species Vitis vinifera
transcript Vv12s0059g02310.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G10710.1 (Glycine max), 3'ss of exon 5
gtatagaatagaaggatttaggaatttagttaattctgtatctgtatttatagaacattttgttgaggttctaaagcttgatgtttcttttctttattgttattattattattattattttggtttggttttcagATTGATCGGATCTCGGCAATTGCTGCAAAGTATGTTGGCAAACCAGTAGTGAACTATCC---TCTTATTCCTCAGGTTCCCACCCGTCCCCTCGATCTAGGGG
                             ||  |||| |||   || ||  ||   ||||||||    ||     |   ||  |||  ||  || ||     || ||    || | ||||    ||  ||||||||||||||| ||||| |||||||||||||||||||| || || ||||| ||||||||| |   | ||  ||||    | ||  | |||||  | || ||||   
----------------------------cttttttctctattc-tacttgaagtcaattttgttcgaatt---gggtgggacatttgattatttcatgacattttttgactttttgattta---tttattttcagATTGATCGCATCTCAGCAATTGCTGCAAAGTATGTAGGGAAGCCAGTGGTGAACTATTCAAATATTTCTCCTTCTCTCCCTCCTCGTCCGTTAGAACTAG---

upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G46000.1 (Glycine max), 3'ss of exon 4
gtatagaatagaaggatttaggaatttagttaattctgt-atctgtatttatagaacattttgttgaggttctaaagcttgatgtttcttttctttattgttattattattattattattttggtttggttttcagATTGATCGGATCTCGGCAATTGCTGCAAAGTATGTTGGCAAACCAGTAGTGAACTATCCTCTTATTCCTCAGGTTCCCACCCGTCCCCTCGATCTAGGGG---
                    | | | || |||| | | | |  |  ||||     | |||  || |        ||  ||||| | ||| |    | || | | | ||||| ||| |||||        ||| |||||||||||||| || |||||||||||||||||||| || || || || ||||| ||| |   |||| |||   ||| | |||  | | || || |||      
--------------------gtattctatttaactatatgagttaaattttcttgatattgggtagg-------aaatttgat-tatctctgacattttttgact-ttatttttaatatttc-------tttccagATTGATCGGATTTCAGCAATTGCTGCAAAGTATGTAGGGAAGCCTGTGGTGAATTATTCAAATATTTCTCC--TTCTCTCCCTCCTCGTCCAT-TAGAAATTG

upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G38430.1 (Glycine max), 3'ss of exon 5
gtatagaatagaaggatttaggaatttagttaattctgtatctgtatttataga-acattttgttgaggttctaaagcttgat--gtttcttttctttattgtta-ttattattattattattttggtttggttttcagATTGATCGGATCTCGGCAATTGCTGCAAAGTATGTTGGCAAACCAGTAGTGAACTATCCTCTTATTCCTCAGGTTCCCACCCGTCCCCTCGATCTAGGGG
                                       || | |  | | ||| |||| |  || ||     | ||  | ||   ||  || | ||| |||||| || ||||   | ||  |  |  || || ||||||||||| |||| || || |||||||||||||||||||| || || || |||| |||||| ||| || |||      | |  | ||| | |   |||| | 
---------------------------------------atttctgataaaagatacatatgatttagagcaaagaggctaattaattagttattttttttgttaattcttatgtatgttggtacgtgtttgtgttcagATTGATAGGATTTCTGCCATTGCTGCAAAGTATGTTGGGAAGCCTGTGGTGAGCTATCCACTTGTTTCTCCTTCATCTATTCCTCCGCGCCCACTAGAGC

upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G32050.1 (Glycine max), 3'ss of exon 5
gtatagaatagaaggatttaggaatttagttaattctgtatctgtatttatagaacattttgttgaggttctaaagcttgatgtttcttttctttattgttattattattattat-tattttggtttggttttcagATTGATCGGATCTCGGCAATTGCTGCAAAGTATGTTGGCAAACCAGTAGTGAACTATCCTCTTATTCCTCAGGTTCCCACCCGTCCCCTCGATCTAGGGG
                              | |||  || |||| ||  | |  |||| |  || ||   | | ||   |||  ||  ||  || | |||| |  | ||| |||| ||| ||||| |   | |||||||||| |||| || || |||||||||||||||||||| || || || |||| |||||| ||| || |||      |    | ||| |     ||||   
------------------------------tgatt--gtctctg-ataaaaaatacatatgatttagaaccaagag---gatagttaattagttgagtgttttgttaattcttatatatgttggtgttaatgtcagATTGATAGGATATCTGCCATTGCTGCAAAGTATGTTGGGAAGCCTGTGGTGAGCTATCCACTTGTTTCTCCTTCATCTGTTCCTCCTCGTCCACTAGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtttcttttctttattgttattattattattattattttggtttggttttcagATTGATCGGATCTCGGCAATTGCTGCAAAGTATGTTGGCAAACCAGTAGTGAACTATCCTCTTATTCCTCAGGTTCCCACCCGTCCCCTCGATCTAGGGG
 gcttgat  putative branch site (score: 5)
                                                ttttc  putative PPT
       ttttctttattgttat  TA-rich tract