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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaattggcatcagcatccgcaccatctctaatgcactttgttttgtggatacaccctgcatgaccacttactcttccatggtgtaatttcctactgtatagttgatgtcatttggcatcatttagagctaagtatgtttcttgacggaaaaatcttgtatcaaactgaccaaagaaatatttgattcatgtttggcagGTGATGAACCTGATCGGAGATGTCAAGGGAAAGGTAGCAGTTATGCTTGATGATATGATTGACACTGCTG

Basic information

species Physcomitrella patens
transcript PP1S123_105V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S123_105V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA03G24280.2 (Glycine max), 3'ss of exon 5
gtgaattggcatcagcatccgcaccatctctaatgcactttgttttgtggatacaccctgcatgaccacttactcttccatggtgtaatttcctactgtatagttgatgtcatttggcatcatttagagctaagt-atgtttcttgacggaaaaatcttgtatcaaactgaccaaagaaatatttgattcatgtttggcagGTGATGAACCTGATCGGAGATGTCAAGGGAAAGGTAGCAGTTATGCTTGATGATATGATTGACACTGCTG
                                                                                                    |     ||||  ||       |  |   | ||| | || | |  |      ||| |   | ||| |   | |     || ||  ||| ||   | | ||||||||||||  |||| || ||||| | ||||||||||||||||||| ||||||| |||||||| |||||||
----------------------------------------------------------------------------------------------------tgaccaatgttgttcccttaaaactgatgataaatcatatcttatagttctaaattaaagaatcta-taggctttgtaattaggtgaatctcatcttgcagGTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGATGACATGATTGATACTGCTG

upper sequence: PP1S123_105V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA07G12660.1 (Glycine max), 3'ss of exon 5
gtgaattggcatcagcatccgcaccatctctaatgcactttgttttgtggatacaccctgcatgaccacttactcttccatggtgtaatttcctactgtatagttgatgtcatttggcatcatttagagctaagtatgtttcttgacggaaaaatcttgtatcaaactgaccaaagaaatatttgattcatgtttggcagGTGATGAACCTGATCGGAGATGTCAAGGGAAAGGTAGCAGTTATGCTTGATGATATGATTGACACTGCTG
                                                                                   |||  || |||    || |   ||||  |  |   |||  |||         ||  ||||  |   ||  | ||| ||       | |      | |   ||| ||   | | ||||||||||||  |||| || ||||| | ||||||||||||||||||| ||||||| |||||||| |||||||
------------------------------------------------------------------------------accaatgttgttccct----taaaaccgatgataaatcatatc--tta---------atagttctaaattaaagcaccttata-------ggctttgtgattgggtgaatctcatcttgcagGTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGATGACATGATTGATACTGCTG

upper sequence: PP1S123_105V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA05G06110.1 (Glycine max), 3'ss of exon 5
gtgaattggcatcagcatccgcaccatctctaatgcactttgttttgtggatacaccctgcatgaccacttactcttccatggtgtaatttcctactgtatagttgatgtcatttggcatcatttagagctaagtatgtttcttgacggaaaaatcttgtatcaaactgaccaaagaaatatttgattcatgtttg----gcagGTGATGAACCTGATCGGAGATGTCAAGGGAAAGGTAGCAGTTATGCTTGATGATATGATTGACACTGCTG
                                                                                                   || |||  |    ||||       | |  | | ||   ||||  ||    |  |||  |   ||   |  ||  |       | ||  | |||||||    |||||||||||||||||| || ||||| || ||||| || || || ||| | ||||||||||||||||||||||
---------------------------------------------------------------------------------------------------attgttagt----tttgaatgtgctcatggtttagctagttttatggtatactaattatcc-tcgggcaaacttatctgtcttctgtcttatgtttgtgatgcagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTGGATGATATGATTGACACTGCTG

upper sequence: PP1S123_105V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA17G16400.4 (Glycine max), 3'ss of exon 5
gtgaattggcatcagcatccgcaccatctctaatgcactttgttttgtggatacaccctgcatgaccacttactcttccatggtgtaatttcctactgtatagttgatgtcatttggcatcatttagagctaagtatgtttcttgacggaaa--aatcttgtatcaaactgaccaaagaaatatttgattcatgtttggc----agGTGATGAACCTGATCGGAGATGTCAAGGGAAAGGTAGCAGTTATGCTTGATGATATGATTGACACTGCTG------------------------------
                                                                                                     | ||  |  ||||    ||  |||||   | | | |  |   |    | ||  |  ||     | ||||    |||   |||| || || ||||||| |    |||||||||||||||| || ||||| || ||||| || || || ||| | ||||||||||| ||||||||||                              
----------------------------------------------------------------------------------------------------aacttagttgcattct-tatt-tttagttttgaatgtactagctagtagtaattatcctcacgactaact---taaacgtatatgtggtt-atgtttgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGATGATATGATCGACACTGCTGGTATGCCATCGTCATTGTCCAATTTGAACT

upper sequence: PP1S123_105V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA17G16400.3 (Glycine max), 3'ss of exon 5
gtgaattggcatcagcatccgcaccatctctaatgcactttgttttgtggatacaccctgcatgaccacttactcttccatggtgtaatttcctactgtatagttgatgtcatttggcatcatttagagctaagtatgtttcttgacggaaa--aatcttgtatcaaactgaccaaagaaatatttgattcatgttt----ggcagGTGATGAACCTGATCGGAGATGTCAAGGGAAAGGTAGCAGTTATGCTTGATGATATGATTGACACTGCTG
                                                                                                     | ||  |  ||||    ||  |||||   | | | |  |   |    | ||  |  ||     | ||||    |||   |||| || || ||||||    || |||||||||||||||| || ||||| || ||||| || || || ||| | ||||||||||| ||||||||||
----------------------------------------------------------------------------------------------------aacttagttgcattct-tatt-tttagttttgaatgtactagctagtagtaattatcctcacgactaact---taaacgtatatgtggtt-atgtttgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGATGATATGATCGACACTGCTG

upper sequence: PP1S123_105V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: Vv02s0012g00530.t01 (Vitis vinifera), 3'ss of exon 5
gtgaattggcatcagcatccgcaccatctctaatgcactttgttttgtggatacaccctgcatgaccacttactcttccatggtgtaatttcctactgtatagttgatgtcatttggcatcatttagagctaagtatgtttcttgacggaaaaatcttgtatcaaactgaccaaagaaatatttgattcatgtttggcagGTGATGAACCTGATCGGAGATGTCAAGGGAAAGGTAGCAGTTATGCTTGATGATATGATTGACACTGCTG
                                                                                                 |  | |  ||| |   | || |  || | ||  |   | | ||| ||       | || |  |  |        |||     |||||  |   |   |  ||||||||||| ||||| || |||||||| ||||| || ||||| ||| | ||||| |||||||| |||||||
------------------------------------------------------------------------------------------------agctttgaagatatggat-ggaaagatgttgaattcttt-tctttgttacttatgagatgtcattcctgg--agtcaagtctgtatttattgtttaccttacagGTGATGAATCTGATTGGTGATGTCAAAGGAAAAGTTGCAGTCATGGTGGATGACATGATTGATACTGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acggaaaaatcttgtatcaaactgaccaaagaaatatttgattcatgtttggcagGTGATGAACCTGATCGGAGATGTCAAGGGAAAGGTAGCAGTTATGCTTGATGATATGATTGACACTGCTG
                           aaagaaatatttgatt  TA-rich tract