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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacacgccatacttgtaactcttatactgtggcataggatgacctatttgttttttgtttttcgcctgatgataagtttttgttctgtaacttagGTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA

Basic information

species Arabidopsis thaliana
transcript AT1G52360.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 3'ss of exon 1
gtacacgccatacttgtaactcttatactgtggcataggatgacctatttgttttttgtttttcgcctgatgataagtt-tttgttctgtaacttagGTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
             || |       || ||      | | |  | ||  |  |  ||| || | || |  ||| |   |    |||||| |   | || || | ||||| ||  | || |||||   ||| || |||||||| |||||||||||||||||||||
----------gttttctgttcaccatgctaatatgttgaa--aacttgtaatactttcttatacgtc--atgtttcctaacctgttctatttttcagATTGCAGATGGTGAGCGCTTACCCTTAGCTGTGAAGGAGTTGGGAACCTGTGATCTTTATCCACAA

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 3'ss of exon 10
gtacacgccatacttgtaactcttatactgtggcataggatgacctatttgttttttgtttttcgcctgatgataagtttttgttctgtaacttagGTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
      |   |  |  | ||  |  || | ||    |   |    || || | || |   | | |  |  | |        |||||  |   | || || | ||||| ||  | || ||||||  ||| || |||||||| |||||||||||||||||||||
------gttttcttgttcaccatgctaatatgttgaaaacttgtatactt-tcttatacgtcttgtttactaac------ctgttccatttttcagATTGCAGATGGTGAGCGCTTACCCTTGGTTGTGAAGGAGTTGGGAACCTGTGATCTTTATCCACAA

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 10
gtacacgc-catacttgtaactcttatactgtggcataggatgacctatttgttttttgtttttcgcctgatgataagtttttgttctgtaacttagGTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
|||   || |||  ||     | || | | |||  ||| |    |  |  ||     |   ||| |  |||  | | |    | || |||   |||| || |||||||||||||||| || |||  |||||| |||||||| ||||||||||| ||||| |||
gtatgggctcatttttaccctttttgt-ccgtgtaatatgtaagcaaaagtggaaacttgctttag--tgac-acatgcaagtattatgttttttagATTGCTGATGGAGAAAGGTTACCATTGGCTGTTAAGGAGTTGGGCACCTGTGATCTCTATCCTCAA

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 10
gtacacgc-catacttgtaactcttatactgtggcataggatgacctatttgttttttgtttttcgcctgatgataagtttttgttctgtaacttagGTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
|||   || |||  ||     | ||   | ||   ||| |    |  |  ||     |   ||| |  |||  | | |    |  | |||   |||| || |||||||||||||| | || |||  |||||| |||||||| ||||||||||| |||||||||
gtatgggctcatttttacctttttttatccgtctaatatgtaagcaaaagtggaaacttgctttag--tgac-acatgcaagtactatgttttttagATTGCTGATGGAGAAAGGCTACCATTGGCTGTTAAGGAGTTGGGCACCTGTGATCTCTATCCACAA

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 10
gtacacgccatacttgtaactcttata-ctgtggcat-----aggatgacctatttgttttttgtttttcgcctgatgataagtttttgttctgtaacttagGTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
|||   ||  || |  | | | || |  ||||   ||     || | ||  | ||   || |  || ||        |||  ||   |  | ||   |||||||| |||| ||||||||||| || ||   |||||| |||||||| ||||||||||| || || |||
gtatgggctctattattcatttttttggctgtataatttgcgagcaagaagtgttaagttctctttatttttagtgagatgtgtaagtactatgcttcttagGTTGCTGACGGAGAAAGGTTACCTTTAGCTGTTAAGGAGTTGGGCACCTGTGATCTCTACCCCCAA

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 10
----------gtacacgccatacttgtaactcttatactgtggcataggatgacctatttgttttttgtttttcgcctgatgataagtttttgttctgtaa-cttagGTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
            |  |  | || |  | | | |  |    || ||| | |   | ||  ||     |   ||  |  | |   |   || |||   ||    || ||||||||||||||||||| ||||| |||  |||||| ||||| || |||||||||||||| ||||||
gtttgaacttaaattcagcttattc-tcattttggttacatgacattgaa--gcttaagtgagaaat-ccttaaggttcacatttctttcttgccatgccttctcagGTTACTGATGGAGAAAGATTGCCTTTGGCTGTTAAGGAGTTAGGAACCTGTGATCTTTACCCACAA

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 10
----------gtacacgccatacttgtaactcttatactgtggcataggatgacctatttgttttttgtttttcgcctgat--gata-agt---ttttgt----tctgtaa--cttagGTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
           |||| |      ||  | || ||   ||| |    | ||  | |||||| || | |  |||| || |  |   | | |||   ||| ||    ||| | |  || ||||||| ||||||||||| ||||| |||  ||| ||||||||||| |||||||| |||||||| |||
gtttatttccctacatgtgcagatttcatctttttggctgagatggatgagaaactattttttctcttctttttgctttgtctaacatagtcaatttggtaacatctattattctcagGTTACAGATGGAGAAAGATTGCCTTTGGCTGTGAAAGAGTTGGGAACCTGTGACCTTTATCCTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacctatttgttttttgtttttcgcctgatgataagtttttgttctgtaacttagGTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
                                            ctgtaac  putative branch site (score: 3)
                                    tttttgttct  CT-rich tract
     atttgttttttgtttt  TA-rich tract