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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttatctcttgttatcatttgtttattatgtatccatcctcctaaattgtttttgttacatgaagtaatttgattagtatcttgtcttttatgcttcctgtgcagTTAGTCATCTGGATTGCTTAGGAGTGCAGGTGGCCTGGATCTCTGGACCTTGGTTTCTTTCCATTTTTGTGAATATTATTCCATGGGAAAGTG

Basic information

species Vitis vinifera
transcript Vv08s0040g03050.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0040g03050.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g17540.3 (Oryza sativa), 3'ss of exon 7
------------------------------------------------------------------------------------gtttat-ctcttgttatcatttgt----ttattatgtatccatcctcctaaattgtttttgttaca----tgaagtaatttgattagtatct-tgtcttttatgcttcctgtgcagTTAGTCATCTGGATTGCTTAGGAGTGCAGGTGGCCTGGATCTCTGGACCTTGGTTTCTTTCCATTTTTGTGAATATTATTCCATGGGAAAGTG-------
                                                                                    | | || || ||||  ||| |||     ||   |||  |  ||     | ||    |  |||  ||    ||  ||   |   |  |||  |   ||  |||     |   | |||  |  ||| |||||| | | ||||| |||||||| ||| |  ||||||| ||||||||||| |||||  | |||||  |||||||||||||||       
gtttgtatttcaatgatattattactacacttgtccttttgtagcattctgcatttcacattatcttaaaaaaaacatggtcctggtcatgcttttgtattcagttgaaatgttgagatgactttatttgtttgaacacataatgtatcaactttgtggtgtatcactctgtacttacatcaattacaaccctctttcagCAAAGCATATGGATTTCCTGGGAGTTCAGGTGGCATGGGTGACTGGACCATGGTTTCTTTCAATTTTCATCAATATGCTTCCATGGGAAAGTGGTCAGGT

upper sequence: Vv08s0040g03050.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 9
------------------------------------------------------------------------------------gtttat-ctcttgttatcatttgt----ttattatgtatccatcctcctaaattgtttttgttaca----tgaagtaatttgattagtatct-tgtcttttatgcttcctgtgcagTTAGTCATCTGGATTGCTTAGGAGTGCAGGTGGCCTGGATCTCTGGACCTTGGTTTCTTTCCATTTTTGTGAATATTATTCCATGGGAAAGTG
                                                                                    | | || || ||||  ||| |||     ||   |||  |  ||     | ||    |  |||  ||    ||  ||   |   |  |||  |   ||  |||     |   | |||  |  ||| |||||| | | ||||| |||||||| ||| |  ||||||| ||||||||||| |||||  | |||||  |||||||||||||||
gtttgtatttcaatgatattattactacacttgtccttttgtagcattctgcatttcacattatcttaaaaaaaacatggtcctggtcatgcttttgtattcagttgaaatgttgagatgactttatttgtttgaacacataatgtatcaactttgtggtgtatcactctgtacttacatcaattacaaccctctttcagCAAAGCATATGGATTTCCTGGGAGTTCAGGTGGCATGGGTGACTGGACCATGGTTTCTTTCAATTTTCATCAATATGCTTCCATGGGAAAGTG

upper sequence: Vv08s0040g03050.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G05490.1 (Glycine max), 3'ss of exon 9
gtttatctcttgttatcatttgtttattatgtatccatcctcctaaattgtttttgttacatgaagtaatttgattagtatcttgtctt--ttatgcttcctgtgcagTTAGTCATCTGGATTGCTTAGGAGTGCAGGTGGCCTGGATCTCTGGACCTTGGTTTCTTTCCATTTTTGTGAATATTATTCCATGGGAAAGTG
|||| | | || ||||| |||| |  | | |||  | || |    |||||| | | |     |||  | ||||  || | | || |  |  | ||||||   ||||||||| ||||||||||| ||| |||||||||||||| ||||| |||||| |||||||||| || || ||||| || || ||||| ||||||||||
gtttgtat-ttattatc-tttgctcttca-gtaatcttcttgt--aattgtctctct-----gaatcagtttggatatttttttattctactgatgcttttggtgcagTTAATCATCTGGATTACTTGGGAGTGCAGGTGGCATGGATATCTGGATCTTGGTTTCTATCAATCTTTGTAAACATAATTCCTTGGGAAAGTG

upper sequence: Vv08s0040g03050.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT2G37290.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttatctcttgttatcatttgtttattatgtatccatcctcctaaattgtttttgttacatgaagtaatttgattagtatcttgtctttta----tgcttcctgtgcagTTAGTCATCTGGATTGCTTAGGAGTGCAGGTGGCCTGGATCTCTGGACCTTGGTTTCTTTCCATTTTTGTGAATATTATTCCATGGGAAAGTG
     |   || || |||| || |  | | || ||    || |  | || | |   ||| |   || ||| ||||  || |||| | ||  |    | || |   |||||||| ||||||||||| ||| ||||||||||| || ||||||||||| || ||||| || || |||||||| || |||||||| |||||| | |
----gttcgttattttcatctgatattcaagtttct---cttcatatttttctcccttatacagagcaatgtgatc-gtttcttctattccaataatcctcctgatgcagTTAATCATCTGGATTACTTGGGAGTGCAGGTTGCATGGATCTCTGGCCCATGGTTCCTATCTATTTTTGTCAACATTATTCCTTGGGAATGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgttacatgaagtaatttgattagtatcttgtcttttatgcttcctgtgcagTTAGTCATCTGGATTGCTTAGGAGTGCAGGTGGCCTGGATCTCTGGACCTTGGTTTCTTTCCATTTTTGTGAATATTATTCCATGGGAAAGTG
                 atttgat  putative branch site (score: 5)
                                  tcttttatgcttcct  putative PPT
               taatttgattagtat  TA-rich tract