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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatttctttctacccttcaagcacctttataagaatctcatcaagttctgtttgaaatatacaaggactatcatcatccaattctgtgctttataaggattattatcatccacttctgtgctttactgatagtgtttataaattctgttcatcatccagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA

Basic information

species Vitis vinifera
transcript Vv07s0104g01280.t01
intron # 8
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 8
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 3'ss of exon 8
gtaagatttctttctacccttcaagcacctttataagaatctcatcaagttctgtttgaaatatacaaggactatcatcatccaattctgtgctttataaggatta--ttatcatccacttctgtgctttactgatagtgtttataaattctgttcatcatc--cagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA
                                                                          |   | ||   ||   |||  ||| |  |||    |||  |    || | |  |||   |||  | | ||     | ||||    ||   |||||| |  |||| || ||||||||||| |||||||| || || ||||| |||||||| ||||| ||||||||||| || || ||||||||||| || ||||
-------------------------------------------------------------------------gtgtgcctctgctttgatgcagtatcaaaatttgcatatagtttcattttatagttt---gattttatctactttgtttgtttgatattggcagTTGCTAGATTTGAGCGGCATTCTCACCGTATTCTTCTGTGGTATTGTAATGTCACATTACACTTGGCATAACGTCACAGAGAGTTCAAGAGTTACAACAA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 3'ss of exon 9
gtaagatttctttctacccttcaagcacctttataagaatctcatcaagttctgtttgaaatatacaaggactatcatcatccaattctgtgctttataaggattattatcatccacttctgtgctttactgatagtgtttataaattct------gttcatcatccagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA
                                                               |     | || | ||      | |||   ||||  |      |  ||| ||||    |      || ||||| | ||| | |    |       |  ||  | ||| || |  || | ||||||||||||||||| ||||| |  || || || |||||||| ||||| |||||||| ||||| ||||| || ||  | || || |
---------------------------------------------------------------ttggcagtctgtaatttctttaatct-cactttgca----ccagcatcttccaaag-tacatgatattgatattttttttgaccctttcatatatatatatttcagCTGCTAGATCTGAGTGGCATTCTCACTGTGTTCTTCTCTGGAATAGTAATGTCACATTACACTTGGCATAATGTGACAGAAAGCTCTAGGATTACTACCA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G027851_T03 (Zea mays), 3'ss of exon 6
gtaagatttctttctacccttcaagcacctttataagaatctcatcaagttctgtttgaaatatacaaggactatcatcatccaattctgtgctttataaggatt-attatcatccacttctgtgctttactgatagtgtttataaattctgttcatcatccagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA
                                                                          |   | ||  ||    ||    |   | ||| |   |  |   |||     ||| |||||   |||| ||| ||   |  |||  | ||| || |  || | ||||||||||| || |||||||| ||||| || || ||||| || ||||||||||| || ||||| || || ||||||||||| || |
-------------------------------------------------------------------------gtgcacctctgatcagatgtggcaagggaattcacgcttgttgtcttactctcttaactgactctgttcatatatatgg--catt-tgcagCTGCTAGATCTGAGTGGCATTCTTACCGTATTCTTCTGCGGCATCGTGATGTCGCATTACACCTGGCACAATGTGACAGAGAGCTCAAGAGTCACAACCA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G311165_T01 (Zea mays), 3'ss of exon 8
gtaagatttctttctacccttcaagcacctttataagaatctcatcaagttctgtttgaaatatacaaggactatcatcatccaattctg-tgctttataaggattattatcatccacttctgtgctttactgatagtgtttataaattctgttcatcatccagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA
                                                             |   ||     ||   | | ||  | | |    |||  |    |||  | ||  ||   ||||   ||  |  ||  |  |        | || ||  |  ||||| || |||| ||||||||||||||||| || || || || || || ||||||||||| || ||||| || || || |||||||| || ||||| || |
------------------------------------------------------------gtgagcaccctgtacttttaacctctgcagacattttgcattttttaaaagcaaacatagctgtaaattgttattaacgggttg----cttttttattgta-agTTGCTCGATTTGAGTGGCATTCTCACTGTGTTTTTCTGTGGTATCGTAATGTCACACTATACTTGGCAAAATGTAACAGAAAGTTCGAGGGTCACAACCA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G311165_T06 (Zea mays), 3'ss of exon 7
gtaagatttctttctacccttcaagcacctttataagaatctcatcaagttctgtttgaaatatacaaggactatcatcatccaattctg-tgctttataaggattattatcatccacttctgtgctttactgatagtgtttataaattctgttcatcatccagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA-
                                                             |   ||     ||   | | ||  | | |    |||  |    |||  | ||  ||   ||||   ||  |  ||  |  |        | || ||  |  ||||| || |||| ||||||||||||||||| || || || || || || ||||||||||| || ||||| || || || |||||||| || ||||| || | 
------------------------------------------------------------gtgagcaccctgtacttttaacctctgcagacattttgcattttttaaaagcaaacatagctgtaaattgttattaacgggttg----cttttttattgta-agttgctcgatttgagtggcattctcactgtgtttttctgtggtatcgtaatgtcacactatacttggcaaaatgtaacagAAAGTTCGAGGGTCACAACCAA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S31_203V6.1 (Physcomitrella patens), 3'ss of exon 9
---------gtaagatttctttctacccttcaagcaccttta----taagaatctcatcaagttctgtttgaaatatacaaggactatcatcatccaattctgtgctttataag--gattattatcatccacttctgtgctttactgatagtgtttataaattctgttcat--catccagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA
               | ||| |||   ||  | |||   ||     |||  |    || |  |||| |||  ||| |  |     | ||| || |   |  ||   ||||   |  |||   ||| ||    |||  |||   |   |     ||  |   ||||||  ||  ||| ||| | |||||  | ||||| ||||| || || |||||||| || ||||| |||||||||||||||||||||||||| |||||||| ||| |||| || || |
gtcccccttcctctctctctctctcgactatatgcattgtttggattaaagagtctattagtttcttttt--aatttcaattctatttcagcagc-gttgttgaaatttagtcgctgatgtctattattttattccctgcacgatgaactcatttcgtgttttctgtgtattgcatgcagCTTTTCTACCTGAGTGGAATTCTTACCGTCTTCTTTTGTGGCATTGTAATGTCACACTACACCTGGCATAACGTCACTGAAAGCTCACGAGTAACTACCA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S169_48V6.1 (Physcomitrella patens), 3'ss of exon 8
gtaagatttctttctacccttcaagca---cctttataagaatctcatcaagttctgtttgaaatatacaaggactatcatcatccaattctgtgctttataaggattattatcatccacttctgtgc----tttactgatagtgtttataaattctgttcatcatccagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA
       ||   || ||  |||| ||      ||| |   ||| |     | | | | |||  || ||    ||| |  |  |      ||||||     || |  || ||   |        ||  |    ||||   ||  |  ||    || | ||   |  | ||| | ||||| || ||||| |||||| | || ||||||||||| ||||| ||||| || ||||| ||||||||||| || || | |||  || |||| |  |
------gttagctcgactgttcatgcgaattgtttgttcaaatgtttgttactgcagcttgctatttaacttgacgaggaa-acgggcatctgtg-----taggagtttttgcaacttgtaaatgcacaggttttagaaatcttactttagtatgcggtcttttttgcagCTTTTCTACTTGAGTGGAATTCTCTCAGTGTTCTTTTGCGGCATTGTAATGTCTCATTACACTTGGCATAACGTCACGGAGAATTCTCGAATCACAAGCA

upper sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S207_23V6.2 (Physcomitrella patens), 3'ss of exon 9
gtaagatttctttctacccttcaagcacctt---tataagaatctcatcaagttctg----tttgaaatatacaaggactatcat------catccaattctgtgctttataag--gattattatcatccacttctgtgctttactgatagtgtttataaattctgttcatcatccagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA
||    ||||| |||  |    | |    ||   |||  | |||  ||   ||  |      |||    || | |   || |  |      ||  ||  |    ||||  |  |   | |||  | ||||  |||||  || |      | || || |   |  | |    ||| ||| | ||||| || ||||| ||||| ||||| |||||||| || ||||| ||||| ||||| ||||||||||| || |||||||| ||  || | ||||| |
gtctactttctctctctctactatgtcaattatgtattgggatcatatattgtattagttacttgttcaatcccaattctgttctgacttgcacgcagcttccagcttccttggcgaagtatgttgatccttttctggactatgaactcaatgcttgtttttcgtttattgcatgcagCTTTTCTACTTGAGTGGGATTCTTACTGTCTTCTTTTGTGGCATTGTAATGTCCCACTATACCTGGCATAATGTTACTGAAAGCTCCCGAATAACCACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatccacttctgtgctttactgatagtgtttataaattctgttcatcatccagTTGTTCTATTTAAGTGGCATTCTCACTGTATTCTTTTGCGGGATTGTCATGTCACACTACACCTGGCATAACGTGACTGAAAGTTCAAGAGTCACCACAA
                   tactgat  putative branch site (score: 2)
                                      ttctgttc  putative PPT
                        atagtgtttataaatt  TA-rich tract