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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgaaatgcaattggagatgattattttttgtccacttaagacaattcttgttgggatgctaatttgagtttattttattatttttatcctgctaatttaaatgatttttttttttaaatataattttgacattgaaaaccatgttttttttgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC

Basic information

species Vitis vinifera
transcript Vv13s0067g01290.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 12
gtttgaaatgcaattggagatgattattttttgtccacttaagacaattcttgttgggatgctaatttgagt-ttattttattatttttatcctgctaatttaaatgatttttttttttaaatataattttgacattgaaaaccatgttttttt-tgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC
                                                  |     || || ||| |||  | ||  ||    || |  ||  || ||   |   |  | |||   | |    ||  ||     ||||| | |     | |||  ||||||||||||| | ||| ||||| || |||||||| || || || || ||||| || ||||||||||| || ||||||||  |  |||| |||||||| || |
-------------------------------------------------gtaaaatgggtgttaagttgtttgttgattgcacatatcgattttgttacactgtgtcctgtttgactgtctggattgttcattaattgatacctgcactctttggtgtagACTGTGGACAATGATCTTGCTCTGAAAATATACATAAAGGCTAGGGCAACCCCTAAAGTTGTTGCCGCTTTTGCTGAAAGAAGGGAATTTGACAAGATCC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 12
gtttgaaatgcaattggagatgattattttttgtccacttaagacaattcttgttgggatgctaatttgagtttattttattatttttatcctgctaatttaaatgatttttttttttaaatataattttgacattgaaaaccatgttttttt-tgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC
                                       ||| |    ||||      | | |  ||   ||| |||  |  || |  ||  || ||   |   |  | |||   | |    ||  ||     ||||| | |     | |||  ||||||||||||| | ||| ||||| || |||||||| || || || || ||||| || ||||||||||| || ||||||||  |  |||| |||||||| || |
--------------------------------------gtaaaatgggtctt------aagttgttt---gttgattgcac-atatcgattttgttacactgtgtcctgtttgactgtctggattgttcattaattgatacctgcactctttggtgtagACTGTGGACAATGATCTTGCTCTGAAAATATACATAAAGGCTAGGGCAACCCCTAAAGTTGTTGCCGCTTTTGCTGAAAGAAGGGAATTTGACAAGATCC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 10
gtttgaaatgcaattggagatgattattttttgtccacttaagacaattcttgttgggatgctaatttgagtttattttattatttttatcctgctaatttaaatgatttttttttttaaatataattttgacattgaaaaccatgttttttttgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC
                                       |||||    || |      |||||  ||| | || |||||| | | |||    || ||| ||| ||  || ||| | ||   |||   |    ||||          |||  | | ||||||||||| | ||| |||||||| |||||||| || || || || ||||| || ||||||||||| || ||||||||  |  |||||||||||||||| |
--------------------------------------gtaagatgggtcct------atgctgttttta-ttgattttactgtattt----tgttaaattacat--ttatttgtcttggttatcgcta-atcatttcttgtaccctttgatgtatagACTGTGGACAATGATCTTGCACTGAAAATATACATCAAGGCCAGGGCAACCCCTAAAGTTGTTGCTGCTTTTGCTGAAAGGAGGGAGTTTGACAAAATAC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G430947_T01 (Zea mays), 3'ss of exon 1
gtttgaaatgcaattggagatgattattttttgtccacttaagacaattcttgttgggatgctaatttgagtttattttattatttttatcctgctaatttaaatgatttttttttttaaatataattttgacattgaaaaccatgttttttttgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC
                                          | ||   | ||||    || | ||  |  |  || ||| |||  ||    ||| |||||| ||       |   |||  |||   ||      | |          |||| ||||||||||||| | ||| |||||||| |||||||| || || || || ||||| || ||||||||||| || ||||||||  |  ||||||||||||| |  |
-----------------------------------------tgtcataccgtgtt----tgttgat--gcatggatcttactatactt----tgccaatttacat-------tcacttatgtattggttgtttgctaagtgtgtgcacttttatgtagACTGTGGACAATGATCTTGCACTGAAAATATACATAAAGGCTAGGGCAACCCCTAAAGTTGTTGCTGCTTTTGCTGAAAGGAGGGAGTTTGACAAGACAC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 12
----gtttgaaatgcaatt----ggagatgattattttttgtccacttaagacaattcttgttgggatgctaatttgagtttattttattatttttatcctgctaatttaaat---gatttttttttttaaa------tataattttgacattgaaaaccatgttttttttgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC
    | ||| | |  ||||      |  | | |||| |||    | |||  ||  | |||||     |     | | | | | |   |  | | |     | || |||   ||   |  | ||| || | ||      |||  | || |  || | || |||| |   || |||||||||||| | ||| |||||  | ||||||||||| ||||| ||||| ||||| ||||||||||| || ||||||||| |  ||||||||||||||||||
gttgggttgcattaaaattttgaaaaattcaatattattttgttatttataactttgcttgt-actctatctttctaattgtctcccaaaaatataggggtactgattctcatctagcctgtttattgtgaaatgttgtattctattaatttttacaagcatgctccctt-gtagACTGTGGACAATGATCTTGCTTTAAAAATATATATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCATTTGCTGAGAGGAGGGAGTTTGACAAAATTC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 12
----gtttgaaatgcaattggaga---tgattattttttgtccacttaagacaattcttgttgggatgctaatt-tgagtttattttattatttttatcctgctaatttaaatgatttttttttttaaatataattttgacattgaaaaccatgttttttttgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC
    | ||| | |  |||| || |   | | |||| ||     | |||  ||  |      |    | |||||| |  |   |   ||   |  | || ||    || |||    | ||| || | |||| |  | || || || | || |||| |   || |||||||||||| | ||| |||||  | ||||||||||| ||||| ||||| ||||| ||||||||||| || ||||||||| |  ||||||||||||||||||
gttgggttgcattaaaatttgaaaaattcaatattattctgttatttataactttgtactctatctttctaattgtctgccaaaaatagggtactgattctc---atctaacc--tgtttattgtgaaatgttgtattaacttttacaagcatgctccctt-gtagACTGTGGACAATGATCTTGCTTTAAAAATATATATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCGTTTGCTGAGAGGAGGGAGTTTGACAAAATTC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 12
gtttgaaatgcaattggagatgattattttttgtccacttaagacaattcttgttgggatgctaatttgagtttattttattatttttatcctgctaatttaaatgatttttttttttaaatataattttgacattgaaaaccatgttttttttgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC
                       ||   ||   |  |  |||      | |||||    |  || | |     |  ||  | | |||   | |  ||  | ||||| | | ||| | |     |||||||   ||| |     |||||   || |||||||||||||| ||| |||||  | |||||||| || ||||| ||||| ||||| ||||||||||| || ||||||||| |  ||||||||||||| ||||
----------------------gttgggttgcattta--taattttgcttttgtttacctaatagtatactactgcttgttgaatttg--cttatta--tgaaatggtatatttgtgt-----taatttt--tattaa----tatgttccatt-gtagACTGTGGATAATGATCTTGCCTTAAAAATATACATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCTTTTGCTGAGAGAAGGGAGTTTGACAAGATTC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 12
gtttgaaatgcaattggagat--gattattttttgtccacttaagacaattcttgttgggatgctaatttgagtttattt---tattatttttatcctgctaatttaaatgattttttttttta-aatataatt---ttgacattgaaaaccatgttttttttgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC
  |||   |||| ||| |  |  ||  |  | |   |   |      | || |||   |  || |  |||    || |||   || || | | || |||||  || || |   || || |   |   |||| ||   || |  ||||  |  |||||   || |||||||||||| | ||| |||||  | |||||||| || ||||| ||||| ||||| ||||||||||| || ||||||||| |  ||||||||||||| ||||
-gttgggttgcatttgaaattttgaaaaactctaaactgatctgtttattttttgc--gtttgtttctttctaattgtttacctaatagtataatactgcttgttgaatttgcttattatgaaatggtatatttgtgttaattttgattaatatgttccatt-gtagACTGTGGACAATGATCTTGCTTTAAAAATATACATCAAAGCCAGAGCTACTCCAAAAGTTGTTGCTGCTTTTGCTGAGAGAAGGGAGTTTGACAAGATTC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 12
gtttgaaatgcaattggagatgattattttttgtccacttaagacaattcttgttgggatgctaatttgagtttattttattatttttatcctgctaatttaaatgatttttttttttaaatataattttgacattgaaaaccatgttttttt-tgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC
                                                                           |  | |||   | | | |  | |||||||   | |  | |        | | | ||   |  |     || |||| |  |  |||||||||||| ||||||||| || |||||||| || ||||| ||||| ||||| ||||| |||||||| ||||| |||||  ||||||||||||||||  
--------------------------------------------------------------------------gtaatcttaaaatgaccattttcatttaaagtgtctcctatgggcttctttagtatgctgt-aacggtaatattttctgattcagACTGTGGATAATGACCTTGCTCTAAAAATATACATCAAAGCTAGAGCTACTCCAAAAGTCGTTGCAGCTTTTGCAGAGCGAAGGGAGTTTGACAAAATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgatttttttttttaaatataattttgacattgaaaaccatgttttttttgtagACTGTGGATACTGACCTTGCACTCAAAATATATATTAAAGCGAGAGCAACTCCGAAAGTTGTTGCAGCCTTTGCTGAGCGTCGGGAGTTTGACAAAATTC
                       ttttgac  putative branch site (score: 3)
                                         tgtttttttt  putative PPT
     ttttttttttaaatat  TA-rich tract