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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgtcactactttctgatgcttctactcaaaactttataattcatagagagattctaaagtgtgatgttttctgaagATAAAGGAAGGAGACGGTGCATTTTATGGCCCAAAGATAGACATAACAGTGTCTGATGCCAGGAATAGGAAATTCCAGTGTGCTACTATACAG

Basic information

species Arabidopsis thaliana
transcript AT1G17960.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G17960.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA02G03750.1 (Glycine max), 3'ss of exon 14
---------------------------------------------------------------------------------------gtatgtgtcactactttctgatgcttctactcaaaa--------ctttataattcat---agagagattctaaagtgtgatgttttctgaagATAAAGGAAGGAGACGGTGCATTTTATGGCCCAAAGATAGACATAACAGTGTCTGATGCCAGGAATAGGAAATTCCAGTGTGCTACTATACAG
                                                                                        |     | |  ||    | ||| |     ||||||         |   ||  ||||   |     ||| ||   ||||        || || | || ||||| || |||||||| ||||| |||||||||||||| |  || ||||||||   |  |||||||||||||||||| ||| | |||
gtaattatttcctcttctatatgtcttctagaatgtttcttgccagcgatatatagtttagaatattgtctggaacatatggctgtaattctgattagaacaaattcatgttagatatcaaaaagtgttgtttgcctatctcatttcaattcaattatattctgtgtaaaaccttgcagTTGAATGAAGGGGATGGTGCATTCTATGGACCAAAGATAGACATCAGTGTATCTGATGCATTGGGTAGGAAATTCCAGTGTGCAACTTTGCAG

upper sequence: AT1G17960.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA01G03930.1 (Glycine max), 3'ss of exon 14
-------------------------------------------------------------------------------------gtatgtgtcactactttctgatgcttctactcaaaactt-tataattcat---agagagattctaaagtgtgatgttttctgaagATAAAGGAAGGAGACGGTGCATTTTATGGCCCAAAGATAGACATAACAGTGTCTGATGCCAGGAATAGGAAATTCCAGTGTGCTACTATACAG
                                                                                      |   |   | |    |  |||    | |     || ||   ||  ||||   |     ||| ||   | ||        || || | || ||||| || |||||||| || || |||||||||||||| |  || ||||||||   || |||||||||||||||||| ||| | |||
gtaattatttcctcttctatatgtcttctagaatgtttcatgccagcgatatatagttaaagatattgttttgaacatatggcttctgattagaattcagattggatatcacaaagtgtaatttgcgtatctcatttcaattcaattatattctttgtaaaaccttgcagTTGAATGAAGGGGATGGTGCATTCTACGGACCAAAGATAGACATCAGTGTATCTGATGCATTGAGTAGGAAATTCCAGTGTGCAACTTTGCAG

upper sequence: AT1G17960.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv01s0026g00340.t01 (Vitis vinifera), 3'ss of exon 15
gta-tgtgtcactactttctgatgcttctactcaaaactttataattcatagagagattctaaagtgtgatgttttctgaagATAAAGGAAGGAGACGGTGCATTTTATGGCCCAAAGATAGACATAACAGTGTCTGATGCCAGGAATAGGAAATTCCAGTGTGCTACTATACAG
||| | |  || ||  || |  ||   |   || | | || ||  |   |     | || | |  || |   |  | |  ||||||| ||||| || ||||| |||||||| |||||||||||||| |  || ||||||||    | |||||||||||||||||| ||  |||||
gtaatattgcaataaattatcctgtaccatttctatatttgatgttctctt----gcttattatctgagtcatgctgtacagATAAATGAAGGGGATGGTGCCTTTTATGGACCAAAGATAGACATTAGTGTTTCTGATGCATTAAGTAGGAAATTCCAGTGTGCAACATTACAG

upper sequence: AT1G17960.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv19s0015g00470.t01 (Vitis vinifera), 3'ss of exon 15
gtatgtgt-cactactttctgatgcttctactcaaaactttataattcatagagagattctaaagtgtgatgttttctgaagATAAAGGAAGGAGACGGTGCATTTTATGGCCCAAAGATAGACATAACAGTGTCTGATGCCAGGAATAGGAAATTCCAGTGTGCTACTATACAG
|||  | | || ||  ||    || | |   || | | |||  | |||         || | |  || |   |  | |  ||||||| ||||| ||||||||||||||||| |||||||| ||||| |  || ||||||||    |||||||||||||||||||| ||  |||||
gtaactttgcaataaattaccctg-taccgttctata-tttgaagttctcttgcctcttattatttgagtcatgctatacagATAAATGAAGGGGACGGTGCATTTTATGGACCAAAGATTGACATTAGTGTTTCTGATGCATTAAATAGGAAATTCCAGTGTGCAACATTACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctactcaaaactttataattcatagagagattctaaagtgtgatgttttctgaagATAAAGGAAGGAGACGGTGCATTTTATGGCCCAAAGATAGACATAACAGTGTCTGATGCCAGGAATAGGAAATTCCAGTGTGCTACTATACAG
                              ttctaaa  putative branch site (score: 2)
                                           tgttttct  putative PPT
      aaaactttataattca  TA-rich tract