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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTCGGAAATATGCAAAGACCGAGAGAGTTCTATTCCATTATAATGGGCATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtctgttttttactagcgttttcttttctctaccatgttcttgttccttctcgtctgttaccacgagctgattgattctctgtttgagcag

Basic information

species Arabidopsis thaliana
transcript AT3G08850.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 5'ss of exon 4
TTGTCGGAAATATGCAAAGACCGAGAGAGTTCTATTCCATTATAATGGGCATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtctgttttttactagcgttttcttttctctaccatgttcttgttccttctcgtctgttaccacgagctgattgattct--ctgtttga-gcag
||| || |||| ||| |  || |||||||| || || ||||| ||||| |||||||| ||||| |||||||||||||| || ||||||||||||||||||||   | ||  |   ||  |   |   ||    ||| |  || | | |    || | | || | | ||   ||  || |  || ||||  ||||
TTGCCGTAAATTTGCTAGAACAGAGAGAGTCCTTTTTCATTACAATGGTCATGGTGTACCAAAGCCTACAGCTAATGGGGAGATTTGGGTATTTAACAAGgtgaatgttgcaaaggcactgcataagctgctgcat-tgtttatccatgtgtgtttttgacgaagtgcccttttttttttactttttggtgcag

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 5'ss of exon 3
TTGTCGGAAATATGCAAAGACCGAGAGAGTTCTATTCCATTATAATGGGCATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtctgttttttactagcgttttcttttctctaccatgttcttgttccttctcgtctgttaccacgagctgattgattctctgtttgagcag
||| || |||| ||| |  || |||||||| || || ||||| ||||| |||||||| ||||| |||||||||||||| || ||||||||||||||||||||   | ||  |    |  |   |   ||    ||| |  || | | |    || | | || | | ||   ||  ||  || |||| ||||
TTGCCGTAAATTTGCTAGAACAGAGAGAGTCCTTTTTCATTACAATGGTCATGGTGTACCAAAGCCTACAGCTAATGGGGAGATTTGGGTATTTAACAAGgtgaatgttgcaaagacactgcataagctgctgcat-tgtttatccatgtgtgtttttgacgaagtgccctttt-tttactttttgtgcag

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G048067_T02 (Zea mays), 5'ss of exon 4
TTGTCGGAAATATGCAAAGACCGAGAGAGTTCTATTCCATTATAATGGGCATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtctgttttttactagcgttttcttttctctaccatgttcttgttccttctcgt--------ctgttaccacgagctgattgattctctg----tttgagcag
||| || |||||||| |   | ||||||||||| |||||||||||||| ||||| || ||||| |||||| |||||||||| |||||||| |||||||||||    || | |  |      | | ||   | |  ||      || ||| || |        ||| ||     |  || | | || | ||    ||   ||||
TTGCCGCAAATATGCCAGATCAGAGAGAGTTCTTTTCCATTATAATGGCCATGGCGTACCAAAGCCTACATCTAATGGTGAGATTTGGGTGTTTAACAAGgtaaaattatgatgaagacactgtattgcttgctttgcatgccttacttatcataggtgtctctgataaattaaaatggtcgtttttttgcattttcttgcag

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G41510.1 (Glycine max), 5'ss of exon 4
TTGTCGGAAATATGCAAAGACCGAGAGAGTTCTATTCCATTATAATGGGCATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtc--tgttttttactagcgttttcttttctctaccatgttcttgttccttc--tcgtctgttaccacgagctg--attgattctctgtttgagcag---
|||||| |||||||||||| | || |||||| |||||||||| ||||||||||||||||||||||| || |||||||||||||||||||| || || ||||||  ||||  ||  |     ||  |  | |     |  |  ||| |   ||  | ||   |  |  |   |||  | ||     ||  ||||  |    
TTGTCGTAAATATGCAAAGTCGGAAAGAGTTTTATTCCATTACAATGGGCATGGTGTGCCAAAACCAACTGCTAATGGTGAAATTTGGGTCTTCAATAAGgtcaatgttcattctttttagttcttgatgtgaggtagttatttgataaatcaattgttgttctcttcatcctggaaatgtagtactagttgacaaagaa

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G44210.1 (Glycine max), 5'ss of exon 4
TTGTCGGAAATATGCAAAGACCGAGAGAGTTCTATTCCATTATAATGGGCATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtc--tgttttttactagcgttttcttttctctaccatgttcttg-----ttccttctcgtctgttaccacgagctgattgattctctgtttgagcag--
|||||| |||||||||||| | || |||||| |||||||||| ||||||||||||||||||||||| || |||||||||||||||||||| || || ||||||  ||||  ||  |     ||  |  |       |  |  |||     |   || | ||   || |  |  |   ||  | |    |||     ||  
TTGTCGTAAATATGCAAAGTCGGAAAGAGTTTTATTCCATTACAATGGGCATGGTGTGCCAAAACCAACTGCTAATGGTGAAATTTGGGTCTTCAATAAGgtcgatgttcattctttttagttcttgatgagaggtagttatttgataaatcaattgttgttcttttcatcctggcaatgtagtactagttgacaaagaa

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 5'ss of exon 4
TTGTCGGAAATATGCAAAGACCGAGAGAGTTCTATTCCATTATAATGGGCATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtctgttttttactagcgttttcttttctctaccatgttcttgttccttctcgtctgttaccacgagctgattgattctctgtttgagcag
 ||||| |||||||| ||| | ||||||||| | || || |||||||| |||||||| ||||| || || |||||||||||||||||| | || || ||||| | || ||   | |   ||        |||   | ||  | |  | | | |  | ||  |     |||| || |    || |  ||   
GTGTCGTAAATATGCCAAGTCTGAGAGAGTTTTGTTTCACTATAATGGACATGGTGTACCAAAGCCGACTGCTAATGGTGAAATTTGGCTTTTCAATAAGgtattttattactttgaagttctgccgtgctattttattgatatcgcctttagatttttctcctattctgactggtgtattggtgaag---

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S26_271V6.1 (Physcomitrella patens), 5'ss of exon 4
TTGTCGGAAATATGCAAAGACCGAGAGAGTTCTATTCCATTATAATGGGCATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtctgttttttactagcgttttcttttctctaccatgttcttgttccttctcgtctgttaccacgagctgattgattctctgtttgagcag------------
|||  ||||  |||| |||  ||| ||||| || || |||||||| || || ||||| |||| ||| ||| ||||||| || ||||||||||| ||||||||   ||| |  || || | ||    ||| |    ||   || |    |  |  ||| ||  | |   | ||  | ||   | ||||                
TTGCAGGAAGAATGCGAAGGGCGAAAGAGTACTGTTTCATTATAACGGTCACGGTGTTCCAAGACCAACAACTAATGGAGAGATTTGGGTATTCAACAAGgttgatttctagcttgc-tgttgccctctgtgtgttggaattatcttgtaacacctggtaaaatgg--ttatctactcataggttgaaggtcctctgttatga

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S124_156V6.1 (Physcomitrella patens), 5'ss of exon 4
TTGTCGGAAATATGCAAAGACCGAGAGAGTTCTATTCCATTATAATGGGCATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtctgttttttac-tagcgttttcttttctctaccatgttcttgttccttctcgtctgttaccacgagctga----ttgattctctgtttgagcag-----
||| || |||  ||| |||| ||| || || || || ||||| || || |||||||| |||| ||| ||||||||||||||||| ||||| || || |||||   | |||  | ||  ||| |  |||   |   |||   ||| |   |   || || ||  |      ||    ||||   ||    ||    |     
TTGCCGAAAAAGTGCGAAGAGCGAAAGGGTGCTGTTTCATTACAACGGCCATGGTGTACCAAGACCAACAGCTAATGGTGAAATCTGGGTGTTCAATAAGgtggatatttagcgtattgttgtactttagtt-tgatggagttggttaatagagtatgataatatcgttagaagccttgaacatcgaggtgtagtgtaaac

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S199_73V6.1 (Physcomitrella patens), 5'ss of exon 4
TTGTCGGAAATATGCAAAGACCGAGAGAGTTCTATTCCATTATAATGGGCATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtctgttttttactagcgttttcttttc-tctaccatgttcttgttccttctcgtctgttaccacgagctgattg-attctctgtttgagcag-------
|||||| ||| |||| |||   || || |||||||| ||||| || || |||||||| |||||||| || | |||||| ||||||||||| || ||||||||  || |  |     | |  | || || |||   |||   |           || ||| | ||      | ||| |  |  | ||  | ||        
TTGTCGAAAAAATGCGAAGGGTGAAAGGGTTCTATTTCATTACAACGGCCATGGTGTCCCAAAACCAACGGTTAATGGAGAAATTTGGGTGTTCAACAAGgttggtatcctttcctcttgcttttgtcgtcttggatggagtgcccgaagactgtgtgtcaacatttagggcttgtaggcattattcaaacatgtaatgg

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|116411080|gb|EG453672.1|EG453672
EST:     ATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAG                         AGTTATACACAGTACATTCCCTTGCCAATCAGTGAACTTGATTCCTGGTTG
genomic: ATGGTGTGCCAAAACCTACAGCTAATGGTGAAATTTGGGTATTTAACAAGgtctgttttt ... gtttgagcagAGTTATACACAGTACATTCCCTTGCCAATCAGTGAACTTGATTCCTGGTTG