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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC

Basic information

species Arabidopsis thaliana
transcript AT1G29890.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G29890.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os05g50510.1 (Oryza sativa), 3'ss of exon 8
gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
||| | | ||| |||| | ||| | | | || ||| | || || | | || || | ||| ||| | || | |||| || | || || || | || | ||||| || ||||||||| ||||||| |||||||| ||||||||||| || || |||||
-----------------------------------------------gtgagttatg--catgttttctgtcttagcattattctcattaaccatggataggatttt-------acaccattttcctttcatgtaca-gGATATAAGG-ATCCAGAGCCTTCCAAGGCAAACTTACCCCTGCTACATGAGTGGCATTTCCGATCTGGCCTTGATCGATACATATGGATTATTGGAATGAT------

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G076394_T01 (Zea mays), 3'ss of exon 8
gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaa--taaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
| | | || ||| || ||||| || | | || ||||| ||| || |||| || | | || | |||| || |||| || |||| || | || | |||||||||||| ||| | ||||| |||||||| |||||||||||||| || |||||
-----------------------------------------------gtaaggtatatatctacgcatcccattgccattttaaatcatggatcaagagttgaagattggaaacaaa---tgatcttttttgttcag-

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G08730.1 (Glycine max), 3'ss of exon 9
gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
|||||| |||| | | || | || | | | | || | | | |||||| || | || | | ||| | ||| | |||| || || ||||| || || || || || || || | || || ||||||||||||||||| |||||||||||||| ||||| || || ||||| |||||
--------------------------------gcttttgt-atgttgtctgtttgcaattttctagttgatttgctaatataagcttacatgct---------gtttactgcaaatgcata-attgtaatttttatgtgg---cagGTTATACTGATCCTGCAAAGCCTGATCTCCCTCGAATGCATGAGTGGCATTTCAGATCTGGGCTTGATCGCTACATCTGGATAATTGGAATGATTTATGC

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA05G25780.1 (Glycine max), 3'ss of exon 9
gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
|||||| |||| | | || | || | | | | || | | | |||||| || || | || | | ||| | ||| | |||| || || ||||| || || || || || || || | || || ||||||||||||||||| |||||||||||||| ||||| || || ||||| |||||
--------------------------------gcttttgt-atgtagtctgtttgcaattttctagttgatttgctaatataagcttacatgct--------gtttagtg-caaatgcata-attgtaatttttatgtgg---cagGTTATACTGATCCTGCAAAGCCTGATCTCCCTCGAATGCATGAGTGGCATTTCAGATCTGGGCTTGATCGCTACATCTGGATAATTGGAATGATTTATGC

upper sequence: AT1G29890.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv10s0003g02830.t01 (Vitis vinifera), 3'ss of exon 3
gtcagtaacaaatttctctcatttttcataccatttttgtcatgtggctgatctgtagttctgtcttctacacaaatattttggatggcatgcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
| | | | | | ||| | | |||||| ||| | || | | | || | || || ||||| || || | || ||||| | | ||||||| |||||| || || || || || || ||||||||||| |||||||| ||||||||||| || ||||||||||| |||||
-----------------------------attactatattgaactggtttgttgctagttcaatctagtggcttaacacca-agttaagttgtgttttccaagttttcaaactagtattt--------tcaatggca-gGTTACAGTG-ATCCAGATCCTTCTAAACAAGGTCTCCCTCGACTGCATGAATGGCATTTTAGATCTGGGCTTGATCGCTATATTTGGATCATCGGAATGAT------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttgaataaaaattggtaactaacgttgatattctgtctttaacacaaatacagGGTACACAGATCCAGCTAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGC
     aataaaaattggtaa  TA-rich tract