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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttcctcaatccttatttcaggggattacctcgatattttctttgttttctaactacaattatcattttttcttcagATAATTAGACCGGTGCGATCTAAGCACTGCCCCACTTGTAAGCGCTGCGTTGAACAGTTTGACCATCACTGCCCCTGGATTTCCAACTGTGTTGGTAAG

Basic information

species Arabidopsis thaliana
transcript AT2G14255.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G14255.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: LOC_Os11g34860.1 (Oryza sativa), 3'ss of exon 9
----------------------------------------------------------------------gttttcctcaatcct--------tatttcaggggattacctcgatattttctttgttttct----------aactacaattatcattttttctt---------cagATAATTAGACCGGTGCGATCTAAGCACTGCCCCACTTGTAAGCGCTGCGTTGAACAGTTTGACCATCACTGCCCCTGGATTTCCAACTGTGTTGGTAAG
                                                                      || || ||  || ||         || || |   || |  |  || ||||  |  | || |          ||   ||||||    ||||| ||         ||||||||| | ||  |||| || || || || || |||||||||| ||| ||||| ||||||||||||||||| || ||||| || || |||||||| | |
gtattgtaagaacctattttatttttattctttttaattccaaattccttttttcctttcatatttttgtgtatttcttcatactgaaatgaccatatctgcatatgatatttatttttttctattcttatgtatgtcagaaataccaattacatcttttttttgtgacttaccagATAATTCGCCCAATGCGCTCCAAACATTGTCCAACTTGTAAGCACTGTGTTGAGCAGTTTGACCATCACTGTCCTTGGATATCAAATTGTGTTGGAAGG

upper sequence: AT2G14255.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA08G06860.1 (Glycine max), 3'ss of exon 9
---------------------------------------------gttttcct--caatcct-tatttcaggggatta---cctcgatattttctttgttttctaactacaattatcattttttcttcagATAATTAGACCGGTGCGATCTAAGCACTGCCCCACTTGTAAGCGCTGCGTTGAACAGTTTGACCATCACTGCCCCTGGATTTCCAACTGTGTTGGTAAG
                                               ||| ||  || | || ||||| |    ||||    ||| | |     | |   || | |       |   ||| | || ||||||||| ||||| || ||||||||||| ||||| ||||||||||| || || |||||||||||||| ||||| || ||||| || ||||||||||| |||
gttcacatgatattcttttgagtatttaaaaaatctaatgttgacactttacttacagttctgtattttactttattaaattctcaaaacaagttatcgcttatcaggttttctcgaattgtatcatcagATAATAAGACCTGTCCGATCTAAGCATTGCCCAACTTGTAAGCGATGTGTGGAACAGTTTGACCACCACTGTCCATGGATATCTAACTGTGTTGGGAAG

upper sequence: AT2G14255.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA07G30380.1 (Glycine max), 3'ss of exon 9
---------------------------------------------gttttcctcaatccttatttcaggggattacctcgatattttctttgttttctaactacaattatcattttttcttcagATAATTAGACCGGTGCGATCTAAGCACTGCCCCACTTGTAAGCGCTGCGTTGAACAGTTTGACCATCACTGCCCCTGGATTTCCAACTGTGTTGGTAAG
                                               ||| || |    |   || |    |||  |   | |  || |   || ||    |      |  ||| | || ||||||||| ||||| || ||||||||||| ||||| ||||||||||| || || |||||||| ||||| ||||| || ||||| || ||||||||||| |||
gtttacatgatattcttttgagtatttaaaaaatctaatgttgatactttacttacatttctgtttattaaattctcaaaacaagttatcgcttatcaggttttctcga--attgtatcatcagATAATAAGACCTGTCCGATCTAAGCATTGCCCAACTTGTAAGCGATGTGTGGAACAGTTCGACCACCACTGTCCATGGATATCTAACTGTGTTGGGAAG

upper sequence: AT2G14255.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 9
gttttcctc----aatccttatttcaggggatta----cctcgatattttctttgtt-ttctaactacaattatcat---------------tttttcttcagATAATTAGACCGGTGCGATCTAAGCACTGCCCCACTTGTAAGCGCTGCGTTGAACAGTTTGACCATCACTGCCCCTGGATTTCCAACTGTGTTGGTAAG
||||||       | |  || |||||   ||  |    | |  ||  ||    |  | | ||||  | | ||    |               ||| | |||||||||||||||| || || || ||||||||||| || ||||||||||| || ||||| |||||||| |||||||| |||||||| || ||||| || |||
gttttctcagtgaactttttctttcaaaagaacagatgcattaatgcttgaaatactgtcctaaacagatttggtgtgcattctcaatcttgtttcttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTGGAACAATTTGACCACCACTGCCCTTGGATTTCAAATTGTGTAGGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggattacctcgatattttctttgttttctaactacaattatcattttttcttcagATAATTAGACCGGTGCGATCTAAGCACTGCCCCACTTGTAAGCGCTGCGTTGAACAGTTTGACCATCACTGCCCCTGGATTTCCAACTGTGTTGGTAAG
                         ttctaac  putative branch site (score: 1)
                                     ttatcattttttcttc  putative PPT
                            taactacaattatcat  TA-rich tract