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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgcattgatctcctttcctgcttagttgtgctctttttctttgatgaaaatttacttcagtaaaatatgggatgttcatgctccatgtctgtccttgcaatattaatataatttcttatatgaagatgttttcttgtttttcagGCATTTCTTGCTTTCTATGTCATTAATGATCTGCAAATGTCACAATCATCTAAAGCTTTG

Basic information

species Vitis vinifera
transcript Vv13s0156g00080.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0156g00080.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os07g39010.2 (Oryza sativa), 3'ss of exon 8
gtctgcattgatctcctttcctgcttagttgtgctctttttctttgatgaaaatttacttcagtaaaatatgggatgttcatgctccatgtctgtccttgcaatattaatataatttcttatatgaagatgttttcttgtttt-tcagGCATTTCTTGCTTTCTATGTCATTAATGATCTGCAAATGTCACAATCATCTAAAGCTTTG
                                            |  |     |||   |  ||  ||  |   ||| || || |     | ||  ||   ||||   | |  |    | | |  |  | ||||   | |||  ||||||| ||||||||||||| ||||| |||||| || ||||| |||||||||| ||||| |||
--------------------------------------------tattacctttttcactaggtttaaactacaatgctcttgtttatgctttgaact---aatagctagaggacacatca-actataacgtttctgtatttggtcagGCACTTCTTGCTTTCTACGTCATAAATGATTTGGAAATGCCACAATCATCCAAAGCATTG

upper sequence: Vv13s0156g00080.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G121458_T01 (Zea mays), 3'ss of exon 8
gtctgcattgatctcctttcctgcttagttgtgctctttttctttgatgaaaatttacttcagtaaaatatgggatgttcatgctccatgtctgtccttgcaatattaatataatttcttatatgaagatgttttcttgttttt--cagGCATTTCTTGCTTTCTATGTCATTAATGATCTGCAAATGTCACAATCATCTAAAGCTTTG
                                            | || | ||| | ||   |||    || |  | |||||   |||| |   |    ||   |   | || |    | |  |||  |  |||  ||  | |   ||||||||||||||||||||||| || |||||| |  |||||   ||||| || ||||| |||
-------------------------------------------attatcacaatgttctggtgta---catagtct-ttcat-taccattttgcttggagcttcaaccagatgaccagtca-gtgataacatttcatttatctgaacagGCATTTCTTGCTTTCTATGTAATAAATGATTTAGAAATGAATCAATCCTCCAAAGCATTG

upper sequence: Vv13s0156g00080.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G060762_T01 (Zea mays), 3'ss of exon 8
gtctgcattgatctcctttcctgcttagttgtgctctttttctttgatgaaaatttacttcagtaaaatatggg-atgttcatgctccatg-tctgtccttgcaatattaatataatttcttat--atgaagatgttttcttgttttt--cagGCATTTCTTGCTTTCTATGTCATTAATGATCTGCAAATGTCACAATCATCTAAAGCTTTG
                                                      || | | |     || |  | |  || |  ||  | |  ||||| ||| |   | ||    ||  |   |   |||  |  |||  ||  | |   ||||||||||||||||||||||| || |||||| |  |||||   ||||| || ||||| |||
-----------------------------------------------------cttgcattacctttatttaagtagatttaaactataagacctgtcattggagcttcaaccagatgacccgtcagtgataacatttcatttatctgaacagGCATTTCTTGCTTTCTATGTAATCAATGATTTAGAAATGAGTCAATCCTCCAAAGCATTG

upper sequence: Vv13s0156g00080.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G16870.4 (Glycine max), 3'ss of exon 5
gtctgcattgatctcctttcctgcttagttgtgctctttttctttgatgaaaatttacttcagtaaaatatgggatgttcatgctccatgtctgtccttgcaatattaatataatttcttatatgaagatgttttcttgtttttcagGCATTTCTTGCTTTCTATGTCATTAATGATCTGCAAATGTCACAATCATCTAAAGCTTTG
                                               ||||| || |   | | |   | ||   |    |||   |||  |  |  |   |   |  ||  |  || | |||  || |||  |||||   ||||||||||  |||||||||| |||||| ||||| || |||||| | |||||| | |||||||||
-----------------------------------------agaaactgaaacttcatgcctgca---tttgaatttccaatgaagcataacaataatattatggtatatgaacattttgataccaaaatgacttctt---tttcagGCATACCTTGCTTTCTTTGTCATCAATGACCTACAAATGGCCCAATCAGCCAAAGCTTTG

upper sequence: Vv13s0156g00080.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G42210.1 (Glycine max), 3'ss of exon 8
gtctgcattgatctcctttcctgcttagttgtgctctttttctttgatgaaaatttacttcagtaaaatatgggatgttc--atgctccatgtctgtccttgcaatatta-atataatttcttatatgaagatgttttcttgtttttcagGCATTTCTTGCTTTCTATGTCATTAATGATCTGCAAATGTCACAATCATCTAAAGCTTTG
                                                   |   || || |  | ||  ||  |  |||  |||   |||  |  |  |    || ||| ||  |  || | |||  || |||  |||||   ||||||||||  |||||||||| |||||| ||||| || |||||| | |||||| | |||||||||
-----------------------------------------------caggagcataattaaaaagaaactgaaaatttccaatgaaacataacaatagtatatatgttatatgaacattttgataccaaaatggcttctt---tttcagGCATACCTTGCTTTCTTTGTCATCAATGACCTACAAATGGCCCAATCAGCCAAAGCTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtccttgcaatattaatataatttcttatatgaagatgttttcttgtttttcagGCATTTCTTGCTTTCTATGTCATTAATGATCTGCAAATGTCACAATCATCTAAAGCTTTG
           tattaat  putative branch site (score: 2)
                                     tgttttcttgtttttc  putative PPT
         aatattaatataattt  TA-rich tract