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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaggatgtatattaagttgatgttttttcatatagttgacaaagacttaaattatgaactgaagattgtctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC

Basic information

species Vitis vinifera
transcript Vv09s0054g01780.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os06g49130.2 (Oryza sativa), 3'ss of exon 8
-----------------------------------------------------gtatgcagga--tgtatattaagttgatgttttttcatatagttgacaaagacttaaattatga---actgaagattgtctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
                                                     ||    || |  | | |    | |  | ||||| | | |||  | |  || | | ||||  | |    ||  |   | ||    |  ||| ||||  ||| | || |||||||| || ||||| || ||||||||||||||||| |||||||| ||||||| |||  |||||||   ||||||||| |||||||
gtgagaaagtggtctgatcatttgaaatatgtgatcgcctcttgatgttagtagttctaagaaattctttccgtaatgaaagttttattaaataaatcaagaaaa-taaaatcctaattctctttaacatttccaaatattttgcagGCTATTCTTTTATTTCAGAAAATAGAAGGTGTGGAAGTATGCTTATTTGGCATGTATGTCCAAGAATATGGTGCAGAATGCAAATTCCCAAACCAACGTC

upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g04490.1 (Oryza sativa), 3'ss of exon 9
gtatgcaggatgtatattaagttgatgttttttcatatagttgacaaagacttaaattatgaactg-----aagattgtctttt------tcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
        |    | ||||      | || ||||| |       |||  | || ||  || ||         | | ||| ||||      |  ||  ||||   |  | ||||| ||||| || ||||| |||||||| ||| ||||||| ||||||||||||||||||||  |||||||    | ||| || || ||||
--------gtaagaaattagtccagtattctttcaaaagaacaccaatcatttcaagcataaatcatacgtgaaactgttttttatcaaatgtttggcagGCTGTCCTTTTGTTCCAGAAAATAGAAGGTGTAGAAGTGTGCCTATTTGGAATGTATGTTCAAGAATTTGGTGCAGAATGCTCCTACCCGAACCAGCGTC

upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G139977_T02 (Zea mays), 3'ss of exon 2
----gtatgcaggatgtatattaagttgatgttttttcat-atagttgacaaagacttaaattatgaactgaagattgtctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
    | || ||   |    |||      |||  || |  | | |  | |||   ||| |  |    ||| | | |||       |  |   ||||   || | ||||| ||||| || ||||| || ||||||||  ||||||| ||||||||||||||||||||  | |||||    ||||| || || ||||
gtaagaattcattcttgtcatttgaagcatgaattgtagtcacaactcacacgtactaatttctgcaaccgtatatttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAAAATAGAAGGTGTGGAAGTATGTCTATTTGGAATGTATGTTCAAGAATTTGGTGCTGAATGCTCTTTCCCGAACCAGCGTC

upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G470556_T01 (Zea mays), 3'ss of exon 8
gtatgcaggatgtatattaagttgatgttttttcatatagttgacaaagacttaaattatgaactgaagattgtctttttcgtttc-cagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
||| | |     | |  | | |||| |  |       ||||| |||   ||| |  |    |||   |  || | |     |||   ||||   || | ||||| ||||  || ||||| || ||||||||  ||||||| ||||||||||||||||||||  |||||||    | ||| || || || |
gtaagaattcattcttgtcatttgaagcatgaat-cgtagtt-acactcactaatttctgcaacactattttttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAGAATAGAAGGTGTGGAAGTATGTCTATTTGGCATGTATGTTCAAGAATTTGGTGCAGAATGCTCTTCCCCGAACCAGCGCC

upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
--gtatgcaggatgtatattaagttgat-gttttttcatatagttgacaaagacttaaattatgaactgaagattgtctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
    | | | | |   | |  || |  |  | ||   |   |  |    |  | |||   |      ||| || | |   ||||  || |||||||| ||||||||||||||||||||||| || ||||||||| | ||||| |||||||||||||| |||||||| ||||||| ||| || |||||||| |
gtaaagggaaggttgctttagagctagtcatgttggtaatcaagtcgttattatttattctggattttgatgacttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC

upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 11
---gtatgcaggatg-tatattaagttgatgttttttcatatagttgacaaagacttaaattatgaactgaagattgtctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
    |  | | | || | ||| ||  ||||   |  ||  ||  || |  | || |   |||||    ||| |    |   ||||  ||||||||| ||||||||||||| ||||| ||||| || ||||| ||| ||||||| ||||||||||||||||||||||| ||||||| ||| || ||||| || |
gtgatgagaaagttgatttatcaatctgat-cgtaatcgaatcattaatcatgaat---attat---ttgatgcccttagctttctattccagGTAGTTTTGTTGTTTCAAAAGATAGAAGGTGTGGAAGTTTGCCTATTTGGCATGTATGTTCAAGAATTTGGATCTGAATGTCAATTTCCTAATCAGCGCC

upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G00230.1 (Glycine max), 3'ss of exon 9
gtatgcaggatgtatattaagttgatgttttttcatatagttg--acaaagacttaaattatgaa--ctgaagattgtctt---tttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
          ||      |||||||| ||| | |||    |||  |  ||  | | ||| |||||  ||   ||||  |||   ||||  ||||||||| ||||||||||||| | ||| ||||| || ||||| ||| ||||||| ||||||||||||||||||||||| ||||||| ||| || ||||| || |
---------gtgatgggaaagttgat-tttatccatccgattgtaatcaaatcattaatcatgaatacttttgattcccttagctttctattccagGTAGTTTTGTTGTTTCAAAGGATAGAAGGTGTGGAAGTTTGCCTATTTGGCATGTATGTTCAAGAATTTGGATCTGAATGTCAATTTCCTAATCAGCGCC

upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G79000.1 (Arabidopsis thaliana), 3'ss of exon 10
-----------------------------gtatgcaggatgtatattaagttgatgttttttcatatagttgacaaagacttaaattatgaactgaagattgtctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
                              | |      || ||||     | || |||| |    |   |  |  | | |||   |    |||    ||    ||||   |||||||||| || |||||||||| ||||||||||| |||||||||||||||||||||||||| || |||||||| || || |||||   ||| || |||||||| |
gtaagaatgatcaaggcgtattgttgttactgtatttactgcatatatgcgttat-ttttctggagttcctctcgtacaattatccttctcactccc-atgccattttatttttccagGTAGTTCTGTTGTTTCAAAAGATTGAAGGCGTAGAAGTATGCTTATTTGGGATGTACGTCCAAGAATTCGGTTCTGAATGCGCATTTCCCAATCAACGCC

upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 9
----gtatgcaggatgtatattaagttgatgttt-tttcat----atagttgaca-----aagacttaaattatgaactgaa---gattgt------ctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
    | |||   || | | |  |   |  | |||  |||||    | | || | |     | || |    |  || | | |    | | ||      | ||||  ||  |||||  || || |||| |||||||| ||||| |||||||||||||| |||||||||||||| |||||||||||||| ||||||  |   || |||||||| |
gtaagaatgatcgacgcacaccatcattgtatttgcttcatgtccacatttaatattttcaggattcctctcttgtagtaatatcgttcgtgctccacattttatttatcagGTGGTTCTGCTGTTCCAGAAGATAGAAGGTGTAGAAGTATGCTTGTTTGGGATGTATGTCCAAGAATTTGGATCCGAATGTTCAAATCCCAATCAACGCC

upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 9
-----------gtatgcaggatgtatattaagttgatgttttttcatatagttgacaaagacttaaattatgaa----ctgaagattgtc-----------tttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
           ||||||  | |   ||||   ||    | ||||  | |  |    |    |||    ||        |||  || | ||           |  ||  ||| ||||  ||| |||||||||||||||||||||| || ||||||||||||||||| |||||||| || ||||||||| |||| | |   |  || ||||| || |
gtacagattgtgtatgcttggttcttatttcttttccttctttttgttttctaattatgaccttctgctacatgatgcctgttgactatcaacttccatactcattttttttcagGCCATTCTGTTGTTTCAGAAGATTGAAGGTGTTGAAGTATGCTTATTTGGCATGTATGTCCAGGAATTTGGAACAGATTCTGCGTCTCCCAATCAGCGCC

upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G55970.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatgcaggatgtatattaagttgatgttttttcatatagttgacaaagacttaaattatgaactgaagattgtctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
|||   | | |  ||  ||  ||  |  || ||||| |   |||       ||      |  |      ||| ||||| |   || ||||  |||||  |||||||||||||||||   || ||||||||||| ||||| ||||  ||||| ||||||||  |||| | |  |   || ||| | || |
gtagcaatggttcatggta--tttgttcttattcattttcatgatgcttgtttgtcacttacaagatgtattttctttatatatttcagGCCATTTTTCTGTTTCAGAAGATTGAAAATGTGGAAGTATGCTTGTTTGGTATGTTCGTTCAGGAATTTGGGACAGACTCTGGACCTCCCAATGAGCGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatagttgacaaagacttaaattatgaactgaagattgtctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC
    agttgac  putative branch site (score: 4)
                                    ttgtctttttcgtttc  putative PPT
           aaagacttaaattat  TA-rich tract