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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaaagtggtctgatcatttgaaatatgtgatcgcctcttgatgttagtagttctaagaaattctttccgtaatgaaagttttattaaataaatcaagaaaataaaatcctaattctctttaacatttccaaatattttgcagGCTATTCTTTTATTTCAGAAAATAGAAGGTGTGGAAGTATGCTTATTTGGCATGTATGTCCAAGAATATGGTGCAGAATGCAAATTCCCAAACCAACGTC

Basic information

species Oryza sativa
transcript LOC_Os06g49130.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49130.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 11
gtgagaaagtggtctgatcatttgaaatatgtgatcgcctcttgatgttagtagttctaagaaattctttccgt-aatgaaagttttattaaataaatcaagaaaataaaatcctaattctctttaacatttccaaatattttgcagGCTATTCTTTTATTTCAGAAAATAGAAGGTGTGGAAGTATGCTTATTTGGCATGTATGTCCAAGAATATGGTGCAGAATGCAAATTCCCAAACCAACGTC
                                                     ||  | ||||| |   |   | |||   |   | ||  ||| | | ||  |   | | |  |   |  | ||| | |||| |      || ||||   || | || ||||| || ||||||||||||||||| ||| |||||||||||||||| ||||||| |||  | |||||  |||| || || || || |
-----------------------------------------------------gtgatgagaaagttgatttatcaatctgatcgtaatcgaatca-ttaatcatgaatattatttgatgcccttagc-tttcta------ttccagGTAGTTTTGTTGTTTCAAAAGATAGAAGGTGTGGAAGTTTGCCTATTTGGCATGTATGTTCAAGAATTTGGATCTGAATGTCAATTTCCTAATCAGCGCC

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
gtgagaaagtggtctgatcatttgaaatatgtgatcgcctcttgatgttagtagttctaagaaattctttccgtaatgaaagttttattaaataaatcaagaaaataaaatcctaattctctttaacatttccaaatattttgcagGCTATTCTTTTATTTCAGAAAATAGAAGGTGTGGAAGTATGCTTATTTGGCATGTATGTCCAAGAATATGGTGCAGAATGCAAATTCCCAAACCAACGTC
                                                  |||     |||   ||  ||  |   |     | ||  |||  || ||   |  ||  | ||   ||| |  | |   |||     |   || ||||  ||  | || |||||||| || |||||||||||||||||| | |||||||||||||| ||||| | |||  | |||||  |||| || || ||||| |
--------------------------------------------------gtaaagggaagg--ttgctttagagctagtcatgttggtaatcaagtcgttattatttattctggattttgatgac--ttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA07G00230.1 (Glycine max), 3'ss of exon 9
gtgagaaagtggtctgatcatttgaaatatgtgatcgcctcttgatgttagtagttctaagaaattc--tttccgtaatgaaagttttattaaataaatcaagaaaataaaatcctaattctctttaacatttccaaatattttgcagGCTATTCTTTTATTTCAGAAAATAGAAGGTGTGGAAGTATGCTTATTTGGCATGTATGTCCAAGAATATGGTGCAGAATGCAAATTCCCAAACCAACGTC
                                                     ||  |  |||| |   |||     ||   | | | || |||| | | ||  |   | | |  | |||| |||  |  |||| |      || ||||   || | || ||||| |  ||||||||||||||||| ||| |||||||||||||||| ||||||| |||  | |||||  |||| || || || || |
-----------------------------------------------------gtgatgggaaagttgattttatccatccgattgtaatcaaatca-ttaatcatgaatacttttgattccctt--agctttcta------ttccagGTAGTTTTGTTGTTTCAAAGGATAGAAGGTGTGGAAGTTTGCCTATTTGGCATGTATGTTCAAGAATTTGGATCTGAATGTCAATTTCCTAATCAGCGCC

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 3'ss of exon 8
lower sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgagaaagtggtctgatcatttgaaatatgtgatcgcctcttgatgttagtagttctaagaaattctttccgtaatgaaagttttattaaataaatcaagaaaataaaatcctaattctctttaacatttccaaatattttgcagGCTATTCTTTTATTTCAGAAAATAGAAGGTGTGGAAGTATGCTTATTTGGCATGTATGTCCAAGAATATGGTGCAGAATGCAAATTCCCAAACCAACGTC
                   |       | | || | |  ||||  |  |  |  ||||      ||  ||   |||| |     || |    || || | |    |  | |   || |  | |   |||||       |||| ||||| ||||| || |||||||| || |||||||| ||||||||||||||||||||||||||||| |||| |||  |||| |     |  || || || || |
-----------------gtacagattgtgtatgcttggttcttatttcttttccttctt-----tttgttttctaattatgaccttct--gctacatgatgcctgttgactatcaacttccatactcattt-------tttttcagGCCATTCTGTTGTTTCAGAAGATTGAAGGTGTTGAAGTATGCTTATTTGGCATGTATGTCCAGGAATTTGGAACAGATTCTGCGTCTCCCAATCAGCGCC

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 3'ss of exon 8
lower sequence: AT1G79000.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgagaaagtggtctgatcatttgaaatatgtgatcgcctcttgatgttagtagttctaagaaattctttccgtaatgaaagttttattaaataaatcaagaaaataaaatcctaattctctttaacatttccaaatattttgc-agGCTATTCTTTTATTTCAGAAAATAGAAGGTGTGGAAGTATGCTTATTTGGCATGTATGTCCAAGAATATGGTGCAGAATGCAAATTCCCAAACCAACGTC
                      | | |    | |  || | ||| ||||| |   | ||    ||  | | ||| ||     |||| |  | |   ||  |    || |||  |  |||||  |  |||  |    |||||| | |||   |||| || ||||| || || ||||| || ||||||||||||||||| ||||| ||||||||||  ||| | ||||||  ||| || || ||||| |
---------------------gtaagaatgatcaaggcgtattgttgttactgtatttactgcata-tatgcgttat-----ttttctggagttcctctcg----tacaattatccttctcactcccatgccattttatttttccagGTAGTTCTGTTGTTTCAAAAGATTGAAGGCGTAGAAGTATGCTTATTTGGGATGTACGTCCAAGAATTCGGTTCTGAATGCGCATTTCCCAATCAACGCC

upper sequence: LOC_Os06g49130.2 (Oryza sativa), 3'ss of exon 8
lower sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgagaaagtggtctgatcatttgaaatatgtgatcgcctcttgatgttagtagttctaagaaattctttccgtaatgaaagttttattaaataaatcaagaaaataaaatcctaattctctttaacatttccaaatattttgcagGCTATTCTTTTATTTCAGAAAATAGAAGGTGTGGAAGTATGCTTATTTGGCATGTATGTCCAAGAATATGGTGCAGAATGCAAATTCCCAAACCAACGTC
                       | || |  |||||| | |      | | |   | |      |  | |||  | | ||  ||||    | |          | ||| ||| |  |  |  |  ||||||     |||||  ||||   ||||  | || ||||| ||||||||||| ||||||||||| ||||| |||||||||||||||| |||  | |||||   |   || || ||||| |
-----------------------gtaaga-atgatcgacgcacaccatcattgtatttgct---tcatgtccacatttaatattttcaggattcctctcttgtagtaatatcgt--tcgtgctccacattt-----tatttatcagGTGGTTCTGCTGTTCCAGAAGATAGAAGGTGTAGAAGTATGCTTGTTTGGGATGTATGTCCAAGAATTTGGATCCGAATGTTCAAATCCCAATCAACGCC

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


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaatcaagaaaataaaatcctaattctctttaacatttccaaatattttgcagGCTATTCTTTTATTTCAGAAAATAGAAGGTGTGGAAGTATGCTTATTTGGCATGTATGTCCAAGAATATGGTGCAGAATGCAAATTCCCAAACCAACGTC
                              tttaacatttccaaat  TA-rich tract