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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatatagttgatgctgtctgtatattgctttcaatgtcgaatttaaatctggtttagtagtaacctagtggaattaaacattttgaggtttgttccttaaatccttctacccaaagtgttaacatattttctaaatttgtcccatttctgcagATATTTTGTCTTCAAGGAAGGTTTATCTTCGGGCCGGATGTAAGATCACTTGGTCTGACCATAAGTCTTATTGTGGCACCTGTTACAATTTTCTGCATCT

Basic information

species Arabidopsis thaliana
transcript AT5G41060.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G41060.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G27160.1 (Glycine max), 3'ss of exon 1
gttatatagttgatgctgtctgtatattgctttcaatgtcgaatttaaatctggtttagtagtaacctagtggaattaaacattttgaggtttgttccttaaatccttctacccaaagtgttaacatattttctaaatttgtcccatttctgcagATATTTTGTCTTCAAGGAAGGTTTATCTTCGGGCCGGATGTAAGATCACTTGGTCTGACCATAAGTCTTATTGTGGCACCTGTTACAATTTTCTGCATCT
                                                                                         ||    |   ||     || |  | |    | |  | ||||   |   ||| ||   ||  |||||| ||||| ||||||||||||||| || || || || ||||| |||||||| |  ||||| || | ||||||||| || |||||| || |||||||  |||
-----------------------------------------------------------------------------------------gtacagtttctatccatttatgactatgagggtg-cttattcattgcttttatcattttcttgcagAAATTTTTTCTTCAAGGAAGGTTCATATTTGGACCAGATGTGAGATCACTGGCGCTGACAATTATTCTTATTGTTGCTCCTGTTGCAGTTTTCTGTGTCT

upper sequence: AT5G41060.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 1
gttatatagttgatgctgtctgtatattgctttcaatgtcgaatttaaatctggtttagtagtaacctagtggaattaaacattttgaggtttgttccttaaatccttctacccaaagtgttaacatattttctaaatttgtcccatttctgcagATATTTTGTCTTCAAGGAAGGTTTATCTTCGGGCCGGATGTAAGATCACTTGGTCTGACCATAAGTCTTATTGTGGCACCTGTTACAATTTTCTGCATCT
                                            ||| |  |  || ||   | |  |  |    |  || ||  | | |  ||||  |||  |     | | |     || | ||| | ||  |      |  | | |||||||||||||| |||||| || ||| |||| || || || ||||| ||||| || || |||||||||   |||||||| || ||||||||  |||||||  |||
--------------------------------------------ttagacat--ttaaggtttgaattcattatgtggaa-atgataatgagtgtttttta--tttccatgctcgggacgtcaccatctgtttca------ttacttgtctgcagATATTTTTTCTTCAGGGGAGGCTTATATTTGGACCCGATGTTAGATCTCTGGGGCTGACCATATTCCTTATTGTTGCTCCTGTTACGGTTTTCTGTGTCT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatccttctacccaaagtgttaacatattttctaaatttgtcccatttctgcagATATTTTGTCTTCAAGGAAGGTTTATCTTCGGGCCGGATGTAAGATCACTTGGTCTGACCATAAGTCTTATTGTGGCACCTGTTACAATTTTCTGCATCT
                              ttctaaa  putative branch site (score: 2)
                                     tttgtcccatttct  CT-rich tract
                  tgttaacatattttct  TA-rich tract