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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtatctcttttatattagtgcaaactcatggttaagatatgtgccttaacatctcaatgaatgtgggtgtcaacaagtgaaaaagcaatcaccactcaattgtaatgtgagaagctgatactgccatttattcagGCACCTGATGAAGAGTTTGAGGAATACCTTAGGCATCTTATCAGCGACCAGTGCACAGGTGACAGGAATGAG

Basic information

species Arabidopsis thaliana
transcript AT5G03430.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G03430.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os01g15490.3 (Oryza sativa), 3'ss of exon 10
gtacgtatctcttttatattagtgcaaactcatggttaagatatgtgccttaacatctcaatgaatgtgggtgtcaacaagtgaaaaagcaatcaccactcaattgtaatgtgagaagctgatactgccatttattcagGCACCTGATGAAGAGTTTGAGGAATACCTTAGGCATCTTATCAGCGACCAGTGCACAGGTGACAGGAATGAG
                          ||||    |||   |||       |     ||  |||||| ||  ||  ||||| | | |||       ||| | |  ||| ||   | | | | |   ||  ||||    |||| ||||||||||||||||| ||||||||||| || || ||  | ||| | | ||| |||||  | ||||||
-------------------------gaact----gttgtcatacactaaatggttgcttcatgaatttgactg--aacaaatcacaaa-----tgccattta-ctgttat-caacatgtttaatttga-attttcatagGCTCCTGATGAAGAGTTTGAAGAATACCTTAGTCAACTGATAGGAGACAATTACACTGGTGATCGAAATGAG

upper sequence: AT5G03430.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 11
gtacgtatctcttttatattagtgcaaactcatggttaagatatgtgccttaacatctcaatgaatgtgggtgtcaacaagtgaaaaagcaatcaccactcaattgtaatgtgagaagctgata-ctgccatttattcagGCACCTGATGAAGAGTTTGAGGAATACCTTAGGCATCTTATCAGCGACCAGTGCACAGGTGACAGGAATGAG
                                     || |   |   |  |||   |||| |  | ||  |  | |||   |  | | ||||    |  || |    ||||  ||    |  |  || | |  ||| |||| ||||||||||| ||||| ||||| ||||||||||||||  | ||||| ||||| |||||| ||||||||
-------------------------------------aaaaagagattcaaaactagtcaa-gcttctgctttgctacata-ggcatatcaattgg-atgcactaactatgtttgatttggtcaattgtcttaaatttagGCCCCTGATGAAGAATTTGAAGAATATCTTAGGCATCTTATAGGTGACCATTGCACTGGTGACCGGAATGAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaagcaatcaccactcaattgtaatgtgagaagctgatactgccatttattcagGCACCTGATGAAGAGTTTGAGGAATACCTTAGGCATCTTATCAGCGACCAGTGCACAGGTGACAGGAATGAG
                                agctgat  putative branch site (score: 4)
                                              tttattc  putative PPT
                 aattgtaat  TA-rich tract