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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttcatttgcccaattgttacatttcagatcttattcttccattccaatttactcagaacaattaatgaaaatctaaatgaatgtgattctgcagGAGTCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAG

Basic information

species Vitis vinifera
transcript Vv13s0067g03490.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g03490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g72330.1 (Oryza sativa), 3'ss of exon 3
------------------------gtatcttcatttgccca--attgttacatttcagatcttattcttccattccaatttactcagaacaattaatgaaaatctaaatgaatgtgattctgcagGAGTCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAG
                        | ||  | ||   |  |  |||  || || |  | || | || || | |   | |  | | | |    ||  |     | |  ||   | ||    | ||||  || || ||  |||| ||||||||||||||||||||||| ||||||||  | ||| ||||||| |||||
gtaagtttttgtttgcagagaattgaattcttatcctctgagcattcataaatcttgggtccttttgttgc-tggaagtggagtaaaatttgttccttttgctgttcat---tttgggggtacagGGATCATCTTCATTGAAGGACATACCAGTTGTGATCATGTCTTCTGAGAATGTGCCTGCAAGGATCAACAG

upper sequence: Vv13s0067g03490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g04500.1 (Oryza sativa), 3'ss of exon 3
----gtatcttcatttgcccaattg-ttacatttcagatcttattct-tccattccaatttac--tcagaacaattaatgaaaa--------tctaaatgaatgtgattctgcagGAGTCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAG
     || | ||  |   | | ||| ||  |      || | |||   || | || |  | ||  | ||  || ||  |||| |        ||    |   | || |    ||||| || || | | | |  ||||| ||||||||||||||||| || || ||||| ||||||||||| || ||
gtaattaccatctctgctctatttgattgtaccaaccatttgatttgatctactcaagatgacagtgaggtcagttcctgaatacagttttttcccttttggtttgttcaatcagGAATCGTCTTATTTAAGGGACATCCCAGTTGTGATCATGTCATCGGATAACATTCCTTCAAGGATCAATAG

upper sequence: Vv13s0067g03490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G129954_T01 (Zea mays), 3'ss of exon 3
--------gtatcttcatttgcccaattgttacatttcagatcttattcttccattccaat----ttactcagaacaatta---------atgaaaatctaaatgaatgtgattctgcagGAGTCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAG
          | || |    ||   ||   |  |  |    | |  | ||| | |||        | ||| |  | ||  |         ||| |  | |   |   | || |    |||||||| || ||||| | ||| || || || ||||||||||||||||||||||| ||||||||||| || ||
gtgactactgaactactccggcatgatcactgaacattctgtatagtgcttgctttctggcatgatcactgaagataacaaggcctaaagatgcatgtttggtttggtttgctctaccagGAGTCGTCGTCTCTCAGAGATATCCCGGTGGTGATCATGTCCTCTGAGAACATTCCTTCAAGGATCAATAG

upper sequence: Vv13s0067g03490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G21650.1 (Glycine max), 3'ss of exon 3
--gtatcttcatttgcccaattgttaca--tttcagat-cttattcttccattccaatttactcagaacaattaatgaaaatctaaatgaatgtgattctgcagGAGTCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAG
    | |    ||||     |  | |||   ||||  | ||| |   ||    |   |||  |   |  ||  ||| | ||  | ||   || ||||| ||||||| |||  |||||| |||||||||||||| ||||| |||||||| |||||  ||||  |||||||||||||
ctcaaaccatttttgtgatgtcataacaaccttcaattacttgtatatcttccctggtttgattttagaaa--aataataacatgaagttat-tgatt-tgcagGAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATTAACAG

upper sequence: Vv13s0067g03490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G26770.1 (Glycine max), 3'ss of exon 3
gtatcttcatttgccca--attgttacatttcagatcttatt-cttccattccaatttactc-agaacaattaatgaaaatctaaatgaatgtgattctgcagGAGTCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAG
  |     |||||| ||      | |   |  |  | | |   | |  ||     | | ||  |  |   | ||  | ||| | ||    | ||||| ||||||| |||  |||||| ||| |||||||||||||||| |||||||| |||||  | || |||||||| |||||
--aatcaaatttgctcatggccatcatgatatatctttgacaacctgtatattcttctgcttgatgatgttgaaaaataatattaagttctttgatt-tgcagGAATCTAAATCTCTTAAAAACATACCAGTTGTGATTATGTCCTCAGAGAATGTACCATCAAGGATCAACAG

upper sequence: Vv13s0067g03490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G37770.1 (Glycine max), 3'ss of exon 3
gtatcttcatttgccca--attgttacatttcagatcttatt-cttccattccaatttactcagaacaattaatgaa-aatctaaatgaatgtgattctgcagGAGTCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAG
  |     |||||  ||      | |   |  |  | | |   | |  ||     | | ||        ||||  || ||| | ||      ||||| ||||||| |||  |||||| ||| |||||||||||||||| |||||||| |||||  | || |||||||| |||||
--aatcaaatttgatcatggccatcatggtatatctttgacagcctgtatattcttctgcttgatgatgttaaaaaataatattaagttccttgatt-tgcagGAATCTAAATCTCTTAAAAACATACCAGTTGTGATTATGTCCTCAGAGAATGTACCATCAAGGATCAACAG

upper sequence: Vv13s0067g03490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G29250.1 (Glycine max), 3'ss of exon 3
gtatcttcatttgcccaattgttacatttcagatcttattcttccattcca---atttactcagaacaattaatgaaaatctaaatgaatgtgatt---ctgcagGAGTCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAG
       |  |    | ||| ||    |    ||  ||  |||| ||| |    || | | | |      |  |  |||  |||  ||| || |||    || |||| |||  |||||| |||||||||||||| ||||| |||||||| |||||  ||||  ||||||| |||||
-----aactctcaaaccatttttgtgatgtgcattgtaaccttcaattgcttgtatcttccctggtttgatgctagaaaaataacagaaagttattgacttgtagGAATCTAAATCTCTTAAAGACATACCAGTGGTGATTATGTCCTCAGAGAATGTCCCAGCAAGGATCAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattccaatttactcagaacaattaatgaaaatctaaatgaatgtgattctgcagGAGTCTTCATCTCTGAAAGACATACCAGTTGTGATCATGTCCTCTGAGAACATCCCTTCAAGGATTAACAG
                               atctaaa  putative branch site (score: 3)
                    aattaatgaaaatcta  TA-rich tract