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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagatatcttctcaaggctgtgattctgcttccataatggggacaatagaacatttctgactaaagtttgcatctgatatggcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG

Basic information

species Vitis vinifera
transcript Vv07s0104g01280.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 5
gtatagatatcttctcaaggctgtgattctgcttccataatggggacaatagaacatttctgactaaagtttgcatctgatatggcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG----------------------
     | ||  |   |||   | |     | | || | |  |      ||  ||| |       ||| | |   | |    |   ||||| |||||||||||||||||||| ||  | |||||||| || || || |||||||| || || ||||| |||||  |                       
-----gttagttgaacaaa--ttttgccatacctcgagagagacctggattcaacgtgctaatgtaatgatcttaaccc-caaaacagGTCCTCAATCAGGATGAGACACCCTTTTTGTACAGTCTGGTATTCGGTGAAGGTGTTGTGAACGATGCTACATCAATTGTGCTTTTCAACGCACTACAGA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 6
gtatagatatcttctcaaggctgtgattctgcttccataatggggacaatagaacatttctgactaaagtttgcatctgata-tggcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG----------------------
   |   |   |   |||   ||  ||| |  |   ||||        |||| |     |  | | || |    ||    || | ||||||||| || |||||||| |||||  | || || |||||||| ||||| |||||||| || |||||||||||||||||                       
--gtttgttgttgaacaat-ttgccatttttatcttataaaaattgagataggaag---ccaatttaattggaaattcattacttgcagGTGCTTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G704237_T01 (Zea mays), 3'ss of exon 3
gtatagatatcttctcaagg---ctgtgattctgcttccataatggggacaatagaacatttctgactaaagtttgcatctgata-tggcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG-----------------------
       | | || |  | |   |||  ||| |  |   ||||        |||| |     |  | | || |    ||    || | ||||||| | || |||||||| |||||  | || || |||||||| ||||| |||||||| || |||||||||||||||||                        
------gtttgttgttgaagaatctgccatttttatcttataaaaattgagataggaag---ccaatttaattggaaattcattacttgcagGTGTT-AACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G701776_T01 (Zea mays), 3'ss of exon 2
gtatagatatcttctcaaggctgtgattctgcttccataatggggacaatagaacatttctgactaaagtttgcatctgata-tggcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG-----------------------
   |   |   |   |||  |||  ||| |   |  ||||        |||| |     |  | | || |    ||    || | ||||||| | || |||||||| |||||  | || || |||||||| ||||| |||||||| || |||||||||||||||||                        
--gtttgttgttgaacaat-ctgccattttatctt-ataaaaattgagataggaag---ccaatttaattggaaattcattacttgcagGTGTT-AACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTCAATGCAATTGAAAA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S113_117V6.1 (Physcomitrella patens), 3'ss of exon 4
---------gtatagatatctt--ctcaaggctgtgattc--tgcttccataatggggacaatagaacattt-ctgactaaagtttgcatctgatatggcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG----------------------
            |  ||    |   ||| ||   |||||   | ||||  |||||       |    || ||  | |||     | |    ||   | |||||||||||||||||||||||| ||| |||| |||||| | || ||||| ||||| || || |||||||| || ||||||                      
attcatggtacctgaattggatggttcagggaaatgattggatacttctttaatgatttttttttgtcaattgttcactttg--tggtgcttgtctttgcagGTGCTCAATCAGGATGAGACCCCTCTGCTTTACAGTTTGGTGTTTGGAGAAGGAGTAGTCAATGATGCTACTTCTGTGGTTCTATTTCGGGCTGTTCAAT

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S169_48V6.1 (Physcomitrella patens), 3'ss of exon 5
--------------gtatagatatcttctcaaggctgtgattctgcttccataatggggacaatagaacatttctgactaaagtttgcatctgatatg-gcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG----------------------
              | || | ||  |    |   |||   || | |||   ||||    |        ||||| |   |    |||| || |  | |  ||||||||| || || ||||| || ||| | || |||||| | |||||||||||||| || ||||||||||| || ||||||                      
actatataatacctgaattggtaattctggagaactgattttgtacttgtttaatttctattcctttccatttttttttt---tttgtattttctttctgcagGTGCTGAACCAAGATGAAACCCCTCTACTTTACAGTTTGGTCTTTGGGGAAGGAGTCGTAAATGATGCTACTTCTGTGGTTCTGTTTCGAGCTGTTCAAA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 6
------------------------------------------------------------------------------------------------------gtatagatatcttctcaaggctgtg-attctgcttccataatggggacaatagaacatttct-------gactaaagtttgcatctgatatggcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG----------------------
                                                                                                      |       || || |  ||    || ||||| ||    |  ||     ||| |    || ||       |  | | |  |   | |  ||  |||||| || |||||||||||  ||||| | ||||||||||| || ||||| ||||| || || |||||||| || |||||                       
gtgggctgcttttttcgtcactgtcattgaagcactgctgtcaagctcatgtagaaagtgtagagaagatttcaagctttcgtagattggcagagtgtctttgctccatgattttatagagaagctgcattcttctgttct--tgaaagtaattgggttttcctctggcgtggttgacgact-tgttttttaatgcagGTTCTTAATCAGGATGATTCACCTCTACTATACAGTCTTGTGTTTGGAGAAGGAGTTGTCAATGATGCTACCTCTGTAGTCTTATTCCGGGCTGTACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccataatggggacaatagaacatttctgactaaagtttgcatctgatatggcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG
                               taaagttt  TA-rich tract