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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtcagcacctttgggattatgttttgttgaatttctctgttgtgtgtgtgcag

Basic information

species Arabidopsis thaliana
transcript AT4G21790.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os03g36790.1 (Oryza sativa), 5'ss of exon 2
GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtcagcacctttgggattatgttttgttgaatttctctgttgtgtgtgtgcag
|||||| |||| || || ||  || |||||||||| | |||||||||||| |||||||| || ||||| ||||||||||| || || |||||| ||  |||||    | | ||      |||||   || ||    |        |  |     ||  ||   | ||| |                      
GTTCAATTGATCAGAATTCAGTTGCGAGTGCCTGAATTTGGTTGGACTACCCAGAAGGTTTTCCATCTGATGAACTTTGTTGTAAACGGAGgtaat-gttgtgctcctttgtt--ttgtttgat---gtcttcagatcaacttttatttactatat-gtgccatcttgcag---------------------

upper sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os03g36790.3 (Oryza sativa), 5'ss of exon 1
---------GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtcagcacctttgggattatgttttgttgaatttctctgttgtgtgtgtgcag
         |||||| |||| || || ||  || |||||||||| | |||||||||||| |||||||| || ||||| ||||||||||| || || |||||| ||  |||||    | | ||      |||||   || ||    |        |  |     ||  ||   | ||| |                      
CTTTTGAAGGTTCAATTGATCAGAATTCAGTTGCGAGTGCCTGAATTTGGTTGGACTACCCAGAAGGTTTTCCATCTGATGAACTTTGTTGTAAACGGAGgtaat-gttgtgctcctttgtt--ttgtttgat---gtcttcagatcaacttttatttactatat-gtgccatcttgcag---------------------

upper sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA17G01820.2 (Glycine max), 5'ss of exon 1
---------GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtca-gcacctttgggattatgttttgttgaatttctctgttgtgtgtgtgcag
          ||||| || | || || ||| | ||||| ||||||||||||||||||||||||||| | |||||||| ||||||||  | ||||| |||||| |    |   |  |||       || || |     ||| ||||||| |   || | |||    |||| |||| ||    |  ||                
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcc-----tcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccag-------------

upper sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA17G01820.3 (Glycine max), 5'ss of exon 1
---------GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtca-gcacctttgggattatgttttgttgaatttctctgttgtgtgt-gtgcag--
          ||||| || | || || ||| | ||||| ||||||||||||||||||||||||||| | |||||||| ||||||||  | ||||| |||||| |    |   |  |||       || || |     ||| ||||||| |   || | |||    |||| |||| ||    |  ||   || |||  |||  |  
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcc-----tcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccagtgcgtgcagtggtgtt

upper sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA17G01820.1 (Glycine max), 5'ss of exon 2
GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtca-gcacctttgggattatgttttgttgaatttctctgttgtgtgtgtgcag
 ||||| || | || || ||| | ||||| ||||||||||||||||||||||||||| | |||||||| ||||||||  | ||||| |||||| |    |   |  |||       || || |     ||| ||||||| |   || | |||    |||| |||| ||    |  ||                
ATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcc-----tcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccag-------------

upper sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G38920.2 (Glycine max), 5'ss of exon 2
GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtcagcacctttgggattatgttttgttgaatttctctgttgtgtgtgtgcag
               ||  || | ||||| ||||||||||| |||||||| |||||  | |||||||| ||||||||  | ||||| ||||||     |||    | || |||   |   |   ||| | | ||||| | | |     |  | ||||   |||| || | ||| | | |||           
--------------AATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCATCTCATGAACTTCATTGTCAACGGAGgt-----ttgc---tctcaattcttcctctttcaggatctctgtgtgtttga----ttcggcgatttatttttttttattttttatattgcag--------

upper sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G38920.1 (Glycine max), 5'ss of exon 2
GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtcagcacctttgggattatgttttgttgaatttctctgttgtgtgtgtgcag
 ||||| || | || ||  || | ||||| ||||||||||| |||||||| |||||  | |||||||| ||||||||  | ||||| ||||||     |||    | || |||   |   |   ||| | | ||||| | | |     |  | ||||   |||| || | ||| | | |||           
ATTCAATTGGTCAGAATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCATCTCATGAACTTCATTGTCAACGGAGgt-----ttgc---tctcaattcttcctctttcaggatctctgtgtgtttga----ttcggcgatttatttttttttattttttatattgcag--------

upper sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtcagcacctttgggattatgttttgttgaatttctctgttgtgtgtgtgcag
 ||||||||||||||||  || |||||||||| |||||||||||||| || |||||||| || ||||||||||||||  ||||||||||||||||  ||   ||||| |  ||||    ||| |    | ||| | | |||       | |    |  | ||| | ||||||| | | |||           
ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaa-atatagtgttgc--ttgatattttggttatttctttct-tgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag--------

upper sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S237_67V6.1 (Physcomitrella patens), 5'ss of exon 2
GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtcagcacctttgggatta---------tgttttgttgaatttctctgttgtgtgtgtgcag--------
|| ||||||||| ||||  || ||||||| || ||||| || |||||||||||||| || || |||||  |||||||| | || |||||||||||  ||||||    || |||   || |   |    ||||||| ||| | |   | |||  ||||          || | |  ||   |  | | |||||| ||||  |        
GTGCAACTGATACGGATAGAACTGAGAGTTCCGGAGTACGGGTGGACTACTCAGAAAGTCTTCCATCTGTTGAACTTTATTGTAAATGGAGgtgagaattgtggaaatcgattt-tcagtccctttt-tttttgttttttttaatccatttctgatttatttcgtcctgatcttctggggtcttttattgtgt-tgtgttgtgttgcag

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|86038980|gb|DR334735.1|DR334735
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|301502535|gb|HO208075.1|HO208075
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|86038985|gb|DR334740.1|DR334740
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|86038987|gb|DR334742.1|DR334742
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|86038988|gb|DR334743.1|DR334743
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         GTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|124909554|gb|EH983634.1|EH983634
EST:     TTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|86038990|gb|DR334745.1|DR334745
EST:     TTGGACTACTCANAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTTGGATTTCACATGCAAGTATTTCTTG
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTT-GGATTTCACATGCAAGTATTTCTTG
EST: gi|86038984|gb|DR334739.1|DR334739
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|125295009|gb|EL309094.1|EL309094
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACA
EST: gi|116408117|gb|EG450709.1|EG450709
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|86038989|gb|DR334744.1|DR334744
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGGTTCATCC
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTG-CGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTG-TTCATCC
EST: gi|125311321|gb|EL325406.1|EL325406
EST:     CTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: CTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|125308452|gb|EL322537.1|EL322537
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCT
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCT
EST: gi|86038982|gb|DR334737.1|DR334737
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGCTCTGTTTGGATTTCACATGCAAGTATTTCTTG
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTG
EST: gi|86038983|gb|DR334738.1|DR334738
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|116479083|gb|EG521675.1|EG521675
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|86038986|gb|DR334741.1|DR334741
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTGTTCATCCCA
EST: gi|125071142|gb|EL136299.1|EL136299
EST:     TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAG                         TTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTG
genomic: TTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattg ... gtgtgtgcagTTCGTGCGGTTCTGTTTGGATTTCACATGCAAGTATTTCTTG