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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatattgggtggctccttgacccatttggttgcagcacatttagtttttctttcaactttctctaactatttctgcctttctatcagATCTTTATTCTGTTTGTGTCCTGCTGGTGACACACCATCTTCAGCGAGGTTGTTTGATGCCATTGTCAGTGGCTGTATACCTGTTATAGTCAGTGACGAG

Basic information

species Arabidopsis thaliana
transcript AT5G16890.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G16890.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os01g59630.1 (Oryza sativa), 3'ss of exon 5
gtatattgggtggctccttgacccatttggttgcagcac-atttagtttttctttcaactttctctaactatttctgcctttctatcagATCTTTATTCTGTTTGTGTCCTGCTGGTGACACACCATCTTCAGCGAGGTTGTTTGATGCCATTGTCAGTGGCTGTATACCTGTTATAGTCAGTGACGAG
                         |     | ||   | ||||  ||| | ||  | || |  || | ||| | || ||      ||| ||| | || || |||  ||| ||||| || || |||||||| ||  |  |||||||||| ||||| ||||| || ||||| |||||||||||||| || 
------------------------gtaaatatacaattctattttatttgtattgtagctgttactgaatatatttgact----ggcagGTCTCTCTTTTGCTTGAATCCGGCTGGGGATACTCCATCTTCTGCTCGTCTGTTTGATGCAATTGTTAGTGGTTGCATACCAGTTATAGTCAGTGATGAA

upper sequence: AT5G16890.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv19s0014g00560.t01 (Vitis vinifera), 3'ss of exon 5
gtat-attgggtggctccttgacccatttggttgcagcacatttagtttttctttcaactttctctaactatttctgcctttctatcagATCTTTATTCTGTTTGTGTCCTGCTGGTGACACACCATCTTCAGCGAGGTTGTTTGATGCCATTGTCAGTGGCTGTATACCTGTTATAGTCAGTGACGAG
|||  |||   |||   ||  || | |||| |   |||   | |  | ||| |||  |   |  || |   ||  | | |    ||||| ||| | || ||  |  |||| ||||||||||| ||||| || || || |||||||| || ||||| ||||| || || ||||||||||| ||||| || 
gtaagattaaatggaagctgaactcttttgctattagctgctatgatgtttatttttaaaatagctga--gttcttccttggtcatcagGTCTATTTTTTGCCTAAGTCCAGCTGGTGACACTCCATCCTCTGCTAGATTGTTTGACGCTATTGTTAGTGGGTGCATCCCTGTTATAGTTAGTGATGAA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagcacatttagtttttctttcaactttctctaactatttctgcctttctatcagATCTTTATTCTGTTTGTGTCCTGCTGGTGACACACCATCTTCAGCGAGGTTGTTTGATGCCATTGTCAGTGGCTGTATACCTGTTATAGTCAGTGACGAG
                            ctctaac  putative branch site (score: 2)
                                  ctatttctgcctttct  CT-rich tract
      atttagtttttcttt  TA-rich tract