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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaatatgttctgacttatatatttcagtacatttagttggttttttctagacaccacaaaaaatttgaacagaactactcgttaataaaatagatattcatatgcctcttcctacttatatatgtgtacttaattccacagGTTGTTGAAGTTTTGACGGAGTCCCTGACTCTAAAAGAGACATCAATTCCAACCAAAGTTGCTAGACTCATGCTTGTGTCTGATATTCTTCATAATAGCA

Basic information

species Arabidopsis thaliana
transcript AT5G25060.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os02g08360.1 (Oryza sativa), 3'ss of exon 15
gtacaatatgttctgacttatatatttcagtacatttagttggttttttctagacaccacaaaaaatttgaacagaactactcgttaataaaatagatattcatatgcctcttcctacttatatatgtgtacttaattccacagGTTGTTGAAGTTTTGACGGAGTCCCTGACTCTAAAAGAGACATCAATTCCAACCAAAGTTGCTAGACTCATGCTTGTGTCTGATATTCTTCATAATAGCA
                                | | |  ||  ||| || ||||      | ||||     ||     |  | || ||| | ||| | ||     | |   ||  | |||     ||| |  |        ||| ||||||||||| | || || ||  |||| || || |||||| | || |||||||| |||||| | || ||||| |||||||||||||||||||| ||||
-------------------------------tcttgttctttttttgttttagattttttataaaac----accctttttttggtaaatcacata-acatgagagtactcattagtgctttgccttgtatgtt--------cagATTGTTGAAGTTCTTACAGAATCTTTGACACTCAAGGAGACACCCATCCCAACCAAGGTTGCTCGGCTTATGCTAGTGTCTGATATTCTTCATAACAGCA

upper sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA16G15820.1 (Glycine max), 3'ss of exon 10
gtacaatatgttctgacttatatatttcagtacatttagttggttttttctagacaccacaaaaaatttgaacagaactactcgttaataaaatagatattcatatgcctcttcctacttatatatgtgtacttaattccacagGTTGTTGAAGTTTTGACGGAGTCCCTGACTCTAAAAGAGACATCAATTCCAACCAAAGTTGCTAGACTCATGCTTGTGTCTGATATTCTTCATAATAGCA
                                  | |  ||  | || |   |  | ||   || |||  || |       || || ||    ||  | |           | | || | |||| |   | ||||| |   ||||| |||||||||||||| || ||| |||| || ||||| ||  | |||||||| ||| |||| || || |||||||| |||||||||||||||||||| |
----------------------------------tgttattattgttctaatgctatcatttaatattcaaata-------tctttcattttgtatgtttgggaggatgcttccttaatcatatctaaat-cttaact--gcagGTAGTTGAAGTTTTGACTGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTCTCTGATATTCTTCATAATAGTA

upper sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 14
gtacaatatgttctgacttatatatttcagtacatttagttggttttttctagacaccacaaaaaatttgaacagaactactcgttaataaaatagatattcatatgcctcttcctacttatatatgtgtacttaattccacagGTTGTTGAAGTTTTGACGGAGTCCCTGACTCTAAAAGAGACATCAATTCCAACCAAAGTTGCTAGACTCATGCTTGTGTCTGATATTCTTCATAATAGCA
                                  |||  ||    || ||  |  | ||   || |||  |  |       | ||| ||    ||  | ||          | | || | |||| |   | ||||| |   ||| | |||||||||||||| || ||| |||| || ||||| ||  | |||||||| ||| |||| || || |||||||| |||||||||||||||||||| |
----------------------------------tttcattatggttctcatgctatcatttaatattcaatta-------ttgttcattttgtatgttttggaggatgcttccttaatcatatctaaat-cttaact--gcagATAGTTGAAGTTTTGACAGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTTTCTGATATTCTTCATAATAGTA

upper sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 13
gtacaatatgttctgacttatatatttcagtacatttagttggttttttctagacaccacaaaaaatttgaacagaactactcgttaataaaatagatattcatatgcctcttcctacttatatatgtgtacttaattccacagGTTGTTGAAGTTTTGACGGAGTCCCTGACTCTAAAAGAGACATCAATTCCAACCAAAGTTGCTAGACTCATGCTTGTGTCTGATATTCTTCATAATAGCA
                          | |    ||||  | |  || |  |    ||   || |||    || | ||   ||  | ||||   || ||  | ||||   |||  ||           || | |        ||| | ||||| ||| | || || ||  | || || ||||| ||| | || ||||| |||||||| || ||||||||||| |||||| ||||||| |||||||
--------------------------ttaaattattttttagaattctgtttccaactgaaagaaagagaaaaaaaaaatcttttgaatactttaaatgcttatatagttctctct-----------tgcatt-------gcagATAGTTGAGGTTCTCACAGAATCTTTAACACTTAAAGAAACACCTATACCAACTAAAGTTGCAAGGCTCATGCTTGTCTCTGATGTTCTTCACAATAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaatagatattcatatgcctcttcctacttatatatgtgtacttaattccacagGTTGTTGAAGTTTTGACGGAGTCCCTGACTCTAAAAGAGACATCAATTCCAACCAAAGTTGCTAGACTCATGCTTGTGTCTGATATTCTTCATAATAGCA
                                         acttaat  putative branch site (score: 4)
                          tacttatatat  TA-rich tract