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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgtccatgtgaaaattgacaactgaagatgtaaatacttgagtggtgtttttcaccttgcttagttaatttaattcggattggttcatgtgctgtagGTTGCATTGTCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGA

Basic information

species Arabidopsis thaliana
transcript AT1G51710.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os01g36930.1 (Oryza sativa), 3'ss of exon 9
---gtttgtccatgtgaaaattgacaactgaagatgtaaatacttgagtggtgtttttcaccttgcttagttaatttaattcggattggttcatgtgctgtagGTTGCATTGTCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGA
     ||  |  | |  || |  | ||    |  |||  |||   |   | ||    |   |  |  |  ||   || |||    |||| |  | |  || ||| | ||||||  ||||||||| ||||| || | ||||| |||||| || |||||| | || ||||||||||| ||||| || |||||| | |||||||||
actagttacctgtattgaattaaaaaaaactatttgttcataa--gcacgatgacaatgctccagtgtgcttctatttattaatgttggcttctat-ttgcagGGTCCATTGTGCAGAAAGTGGTGAAGAGAGTTTAGAGAGAGAATCAGTTTATTCTTTGAAGTGTCATATATCTCATGATGTAAACCACCTTCATGAAGGA

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G017086_T02 (Zea mays), 3'ss of exon 9
gtttgtccatgtgaaaattgacaactgaag-atgtaaatacttgagtggtgtttttcaccttgc-ttagttaatttaattcggattggttcatgtgctgtagGTTGCATTGTCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGA
   |  | |   | | ||||     | | | | |||  ||    |   |   |  || || ||   | || |  ||  ||  |||   | | | |  |  ||| | || |||  ||||||||| || || |||   ||||||||||| |||||||| || || ||||||||||| || || ||||||||  | ||||| |||
tcataacaactggtagattgggtgttcatgtaagtatgtaacaaatatgaaatgatcgccgtgaacttgtgatatttgtt--gatgaatgctttttttccagGGTCCACTGTGCAGAAAGTGGTGAGGAGAGCATGGAGACAGAATCAGTATATTCCCTTAAGTGTCATATATCTCAAGATGTGAACCATCTTCATGAGGGA

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G20900.1 (Glycine max), 3'ss of exon 9
gtttgtccatgtgaaaattgacaac--tgaag---atgtaaatacttgagtggtgtttttcaccttg---cttagttaatttaattcggattggttcatgtgctgtagGTTGCATTGTCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGA
        | | || |||  |||    |||||   ||  |||| ||  | || ||    | |  |||   | |  ||||| || | |   ||| |          |||| | ||||||||||| |||   |||||||||||||| ||||| ||||| ||||| || ||||| || |||||||| || |||||||| ||||| ||||| 
------aaaagagacaatccacacttttgaagtttattaaaatgctc-attgatgcccatgaaattgtatcctgtttaatgtagt-cattttgataacaacttgttagGATTCATTGTCAAGAGAGTAATGAAGAAAGCTCAGAAACAGAGTCTGTTTATTCACTTAAATGCCACATATCACAGGAGGTGAACCATTTGCACGAAGGG

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA07G01480.1 (Glycine max), 3'ss of exon 9
gtttgtccatgtgaaaattgacaac---tgaag---atgtaaatacttgagtggtgtttttcaccttg---cttagttaatttaattcggattggttcatgtgctgt-agGTTGCATTGTCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGA
        | | || |||  |||     |||||   ||  |||| ||| | || |||   | |  |||   |    ||||| || |     || | | ||    ||| ||| | ||||||||||| |||   ||||||||||||||  |||| ||||| ||||| || ||||| || ||||| || || |||||||| ||||||||||| 
-------aaagagagaatccacactttttgaagtttattaaaatgctt-actgatgtccataaaattgtatcccgtttaatgtagtc--attttgataataacttgttagGATTCATTGTCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTATTCACTTAAATGCCACATATCGCAGGAGGTGAACCATTTGCATGAAGGG

upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv09s0002g02500.t01 (Vitis vinifera), 3'ss of exon 9
-gtttgtccatgtgaaaattgacaactgaagatgtaaatacttgagtggtgttttt-caccttgcttagttaatttaattcggattggttcatgtgctgtagGTTGCATTGTCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGA
 ||| |    | ||    |  |       | ||   ||    |||| |    || | ||   |||||   |  ||  |||    || |||  | |  | |||| |||||||  |||||||||| ||||| ||||||||||| ||||| || ||||| || ||||| || |||||||| || |||||||| ||||||||||||
tgttgggttgtctgttcttctattttgacatatcctaaaggatgagagtctcttatacattatgcttttctggtt--attttcttttgttggttttgtttagGATGCATTGCGAAGAAAGTGGTGAAGAGAGCTCAGAGACTGAATCAGTTTATTCACTTAAATGCCACATATCACACGAGGTGAACCATTTGCATGAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgtttttcaccttgcttagttaatttaattcggattggttcatgtgctgtagGTTGCATTGTCAAGAAAGTGGCGAAGAAAGCTCAGAGACAGAATCTGTATATTCTCTAAAATGTCATATATCACATGAAGTGAACCACTTGCATGAAGGA
                         atttaat  putative branch site (score: 4)
                  ttagttaatttaatt  TA-rich tract