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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtcctttaagaatttcgtttctgggttgctgatgattaccatatccttttatcttgtctgtcttccatccttactggactctggaatttaattctgcatttaatatgtttgaattcagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATA

Basic information

species Vitis vinifera
transcript Vv04s0008g00840.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 3
gtgtcctttaagaatttcgtttctgggttgctgatgattaccatatccttttatcttgtctgtcttccatccttactggactctggaatttaattctgcatttaatatgtt-tgaattcagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATA
                                   |  ||   ||      || ||  |  ||     | |  || |    ||||   ||||| |    ||||    |||  ||   | ||||||| ||||| ||||||||||||||||| ||||| || |||||||| |  ||||| || ||||| ||  | ||| |||||||||| ||||| |||||||
-----------------------------------gtatattgtacaagactaactgcttagtgaagtacctgtaat---ttctgttgtttaacta---atttgtcttgtcatgcgattagTTTGATTATCTGAAGAGCTTGGAAATTGAAGAGAAGATTAACAAGATAAAGTGGTGCCAAACAGCAAATGGAGCATTGTTTCTTCTGTCCACAAATGATA

upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 3
gtgtcctttaagaatttcgtttctgggttgctg-atgattaccatatccttttatcttgtctgtcttccatccttactggactctggaa-tttaattctgcatttaat--atgtttgaattcagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATA
                       ||      |  || |||    ||| || || | ||||   |  |  |   ||||| |  | |||||  | |  |||   |||  |  |||      |  ||||||| || ||||| || |||||||| |||||||| ||||||||||| || ||||| |||||||| || |   |||| |  ||||| || || |||||||
----------------------atgaagcattacattattgtgctatgctcttgttttgttcttgcttgaa--ttacttgcatatggaaactcacatctatgtttttttgatgaactgttctagTTTGATTACCTCAAAAGTTTGGAAATAGAGGAGAAGATCAACAAGATCAGGTGGTGCCAGACAGCCAATAATTCACTCTCCCTTCTGTCTACAAATGATA

upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 3
gtgtcctttaagaatttcgtttctgggttgctgatgattaccatatccttttatcttgtctgtcttccatccttactggactctggaatttaattctgcatttaatatgtttgaattcagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATA
                         |  |  |       ||  | |    |  | || | |||||||     |   || | | ||  ||  | |  ||   |||       || | ||||||||| ||||| ||||||||||||||||| ||||| || ||| | || | |||||||||  |||| ||  | ||| ||| |||||| ||||| ||||| |
-------------------------gtatattctcacaaacattgttaagtggtattatttgtcttctgaattacttgaaatttg--ataaagtgatgttgtta-------tggaatcagTTTGATTATCTTAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAATGGTGTCAAGCAGCAAATGGTGCATTGTATCTTCTATCCACAAATGACA

upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 3
gtgtcctttaagaatttcgtttctgggttgctgatgattaccatatccttttatcttgtctgtcttccatccttactggactctggaatttaattctgcatttaatatgtttgaattcagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATA
                         |  |  |   |    |  | |    |  | || | ||||||      |||||      || ||||| |    |   |   |||  ||||||  ||||||| || |||||||||||||||||||| ||||| || ||| | || |  ||||||||  || | ||  | ||| |||||||||| ||||| ||||| |
-------------------------gtatattctcgcaagcattgtttagtggtattatttgtcttatgaa-ttact------tgaaatttgacaaagtgat-gttattattgaat--agTTTGATTACCTCAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAGTGGTGTCAAGCAACAAATTGTGCATTGTTTCTTCTATCCACAAATGACA

upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S167_51V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------------gtgtcctttaagaatttcg----------tttctgggttgctgatgattaccata---tccttttatct-tgtctgtcttccatccttactggactctggaatttaattctgc---atttaatatgtttgaatt---------------------cagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATA
                              ||    ||| |  ||| ||          ||||| |  |  ||||  || || ||   || || ||||    ||| | || |||  |||||    | || || |||  | |     ||| |   |||| |  ||                     |||||||| ||  | ||||| |||||||| |||||||| ||||| || ||||||||||||||||| || |||  ||| | |||  |  | || || ||||| |
gtaatgttagcaacgctaaggtgagtcgtggtaatttttcaagattgcgcccacatagttttctagaatattgatagtttccttaaaatcattatatcaacttctctttttcatatttactaagtt-tgcaagttatctttatcatattgaccgtgttcggtttacgatactgtatttctttctgcagTTTGATTACTTGAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGATGGTGTCAGACTGCCAACGCCGCTCAGTTCTTAATTTCTACGAATGACA

upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S425_2V6.1 (Physcomitrella patens), 3'ss of exon 3
gtgtcctttaagaatttcgtttctgggttgctgatgattaccata-tccttttatcttgtctgtcttccatccttactggactctggaatttaattctgcatttaatatgtttgaattcagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATA
       ||     | | |||| ||  ||  |||  |  |   || |  |||||  |||    ||    ||| ||     ||| | | || |  |||| |          ||||    |||||||| ||  | ||||| |||||||| |||||||| ||||| || ||||||||||| ||||| || ||   ||| | |||||| || || || |||||||
----ttatttgttgtgttgttt-tgattttttgaaaaaaattgtaataattttaatttgaagttcactgatcgttttc--actttcgtatatgcttcttc----------tttg----cagTTTGATTACTTAAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGATGGTGCCAGACTGCCAATGCCGCTCAGTTTCTACTTTCTACCAATGATA

upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ09063 (Selaginella moellendorffii), 3'ss of exon 3
gtgtcctttaagaatttcgtttctgggttgctgatgattaccatatccttttatcttgtctgtcttccatccttactggactctggaatttaattctgcatttaatatgtttgaattcagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATA
                                                        ||    |  || ||| ||   |     ||  ||   |   | | |||  | ||  |     ||||||||||| ||||||||| |||| || ||||| || |||||||| || ||||||||||| || |||||| |||| |  ||| || | ||||||||||| |
-------------------------------------------------------gtgcgcttgctctatcgttgaagcgtgttg--atgctacattacttttgttttggcttc-cccagTTTGACTACCTCAAGAGCCTGGAGATAGAGGAAAAGATCAACAAAATCAGATGGTGTCACACGGCTAACGGCGCTCGTTTTGTTTTATCCACTAATGACA

upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ08844 (Selaginella moellendorffii), 3'ss of exon 3
gtgtcctttaagaatttcgtttctgggttgctgatgattaccatatccttttatcttgtctgtcttccatccttactggactctggaatttaattctgcatttaatatgtttgaattcagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATA
                                                        ||    |  || ||| ||   |     ||    |  |||     |||  | ||  |     ||||||||||| ||||||||| |||| || ||||| || |||||||| || ||||||||||| || |||||| |||| |  ||| || | ||||||||||| |
-------------------------------------------------------gtgcgcttgctctatcgttgaagcgtgttgatgctacattactttttttttttggcttc-cccagTTTGACTACCTCAAGAGCCTGGAGATAGAGGAAAAGATCAACAAAATCAGATGGTGTCACACGGCTAACGGCGCTCGTTTTGTTTTATCCACTAATGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccatccttactggactctggaatttaattctgcatttaatatgtttgaattcagTTTGACTATCTCAAGAGCTTGGAAATTGAGGAGAAAATCAACAAGATTAGATGGTGTCAGACAGCTAACAGCGCACTGTTTCTTCTCTCCACTAATGATA
                     aatttaattctgcatt  TA-rich tract