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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaacttgtttctctttttttgttgtgagtgctcttatttgtcattcttcttgagcaaatgcttatactggcaattctttaatatccttttggttcgctgtttgaatctgtag

Basic information

species Arabidopsis thaliana
transcript AT3G25520.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os01g67126.1 (Oryza sativa), 5'ss of exon 6
TTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtat----taacttgtttctctttttt---tgttgtgagtgctctt-atttgtcatt----cttcttgagca--aatgcttatactggca-attctttaatatc-cttttggttcgctg-tttgaatctgtag-------------------------------
 |  ||||| ||| |||||  |||||| ||||||||||||||  | |||||||| || || ||||| || || ||||||||||| || ||||| || ||||| |    |   ||| |      | ||   || ||| |      || |||||||| |    | ||     ||  |   ||| ||    || |  | | |||||  | ||||| | | || | || ||  ||||                               
CTATGTTGAACCAGCTGATGAAAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGgtgtgttgtgctttgatctcaactgttggctgctgtaataatagttgatttgtcacttgaacatcaaattcatcagctcttttagaaacacaaccgtcaatataacctttggattgttgatctgtattagtagctcatgtggatatacttctcttcttctgcag

upper sequence: AT3G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G163081_T04 (Zea mays), 5'ss of exon 6
TTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtat-taacttgtttctctttttttgttgtga-----gtgctcttatttgtcatt----cttcttgagcaaatgcttatactggcaatt-ctttaatatcc---ttttggttcgctgtttgaatctgtag--------------------------------
 || ||||||||| |||||   ||||| ||||||||||||||  | |||||||| ||||||||||| |||||||| |||||||| || ||||| || ||||||| || ||| | | | ||    || | | |     |||   || |||||  ||    | ||  ||  ||    || | |  |   || || ||| |  |   | ||| |  | ||   || |    |                                 
CTCTGTTGAGCCAGCTGATGAGAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTTATCAGGACTACAACAGGGAACCGTGTCTTTGGTGCCCTCAAGgtatatatcttctgtttgttaccatgatattatattggtgtcattgtttgtatttagcccatcaagaataatcattttttcatgtgcttgctgtaagagtcatctcttgttgtggtgaacgatttcccatctctctagcccctttaacgtttgttgccgcag

upper sequence: AT3G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM5G815894_T03 (Zea mays), 5'ss of exon 6
TTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtat-taacttgtttctctttttttgttgtgagtgctcttatttgtcattcttcttgagcaaatgcttatactggcaattctttaatatccttttggttcgct-gtttgaatctgtag--------------------------------------------------------
 || ||||||||| |||||   ||||| ||||||||||||||  | |||||||| ||||| ||||| ||||| || |||||||| || ||||| || ||||||  |  |||  || |  | |  || ||| |    |    | | |  || |  ||     | |  |  || |   |||| |||   ||    ||| |   |  |      | | | |                                                        
CTCTGTTGAGCCAGCTGATGAGAGGAGGCCTTTCCGTGCTCTCTTGGATGTTGGCCTTATTAGGACTACAACTGGGAACCGTGTCTTTGGTGCCCTCAAGgtacatgtcttccttttgatgtcatgatgttatatttggggtgtttgtttgtagttagctcattaatagtaataataatttttttgcatgaacttgttgtacaaggcatcttttatggtgactggttttccatctctgtagttttttaacgtttgttgcattatgttgctgcag

upper sequence: AT3G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G06580.1 (Glycine max), 5'ss of exon 6
TTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaacttgtttctctttttttgttgtgagtgctcttatttgtcattcttcttgagcaaatgcttatactggcaattctttaatatccttttggttcgctgtttgaatctgtag
|||||| || ||  ||||    ||||| || ||||||||||| ||||||||||| ||||| ||||| ||||| || ||||||||||| ||||| |||||||||   |  | |    || |  |  |  | ||||   || ||| | ||  ||   || |||||      |   |  ||| ||||                                
TTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTGTGTTTGGTGCCCTTAAGgta---atctatcatgctgtaatgttaatcagtgtgattttttttaatggtt---gatcaaattgaataatctgtgattgtttacag-----------------------------

upper sequence: AT3G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G06590.1 (Glycine max), 5'ss of exon 6
TTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaacttgtttctctttttttgttgtgagtgctcttatttgtcattcttcttgagcaaatgcttatactggcaattctttaatatccttttggttcgctgtttgaatctgtag
|||||| || ||  ||||    ||||| || ||||||||||| ||||||||||| ||||| ||||| ||||| || ||||||||||| ||||| |||||||||   |  | |    || |  |  |  | ||||   ||  ||||  |  |  |||| |||||      |   |  ||| ||||                                
TTCCGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACCGGTAACCGTGTGTTTGGTGCCCTTAAGgta---atctatcatactgtaatgttaatcagtgtgatt--ttgttttaatggttgatcaaattgaataatctgtgattgtttacag-----------------------------

upper sequence: AT3G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G03170.1 (Glycine max), 5'ss of exon 6
TTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaacttgtttctctttttttgttgtgagtgctcttatttgtcattcttcttgagcaaatgcttatactggcaattctttaatatccttttggttcgctgtttgaatctgtag
||| || || ||  ||||    ||||| || ||||||||||| ||||||||||| ||||| ||||| ||||| || |||||||| || ||||| ||||||||| |   |  |    |  |  |  ||| | ||| | || |||     |  |  ||| |||||            |||| |||| | |  ||   |                    
TTCAGTGGAACCTGCTGAGAGCAGGAGGCCATTCCGTGCTCTCCTTGATGTTGGTCTTATTAGGACTACAACTGGCAACCGTGTCTTTGGTGCCCTTAAGgtaatctatcatactgcaatgctaattg-gtgtgattttgttt-----taatggtgatcaaat-------tgaataattttttattgt--ttacag--------------------

upper sequence: AT3G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA13G35580.2 (Glycine max), 5'ss of exon 6
TTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaacttgtttctctttttttgttgtgagtgctcttatttgtcattcttcttgagcaaatgcttatactggcaattctttaatatccttttggttcgctgtttgaatctgtag
||| || || ||  | ||    ||||| || |||||||| || ||||||||||| ||| | ||||| ||||||||||| || || || ||||| ||||||||| |  ||  |    |   | ||| | |||    | || |||     |  |  ||  ||||| || ||| | |  ||  ||||                                
TTCAGTGGAACCTGCCGAGAGCAGGAGGCCATTCCGTGCACTCCTTGATGTTGGTCTTGTTAGGACTACAACAGGAAATCGCGTCTTTGGTGCCCTTAAGgtaatctctaatactgcaactcttggtatga----ttttgttt-----tagtggtggtcaaat-ctaataattgtgatggtttacag-----------------------------

upper sequence: AT3G25520.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv05s0094g00870.t01 (Vitis vinifera), 5'ss of exon 6
TTCCGTTGAGCCAACTGATTCAAGGAGACCTTTCCGTGCTCTTCTTGATGTTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaacttgtttctctttttttgttgtgagtgctcttatttgtcattcttcttgagcaaatgcttatactggcaattctttaatatccttttggttcgctgtttgaatctgtag
 || ||||| || || |||   ||||| || |||||||| |||||||||||||| ||| | || || ||||| || |||||||| || |||||||| |||||||||   | |||  |     | | |  |          ||  ||| | || ||| | | | | | |     |   || | |  |   |||    |    ||  |  |  | |  
CTCTGTTGAACCCACAGATAGCAGGAGGCCATTCCGTGCCCTTCTTGATGTTGGGCTTGTGAGAACAACAACTGGCAACCGTGTTTTTGGTGCTCTGAAGgtatta---tattttacaagcctcgctcag----------ttgctcactttttttgcgtaca-gttaaagtccgtctttttattttgcacttgaaataatatgactatacatct--

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|124950526|gb|EL025983.1|EL025983
EST:     TGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
genomic: TGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
EST: gi|125315736|gb|EL329821.1|EL329821
EST:     CGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
genomic: CGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
EST: gi|164065414|gb|ES173436.1|ES173436
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGC
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGC
EST: gi|125298797|gb|EL312882.1|EL312882
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
EST: gi|164142488|gb|ES202890.1|ES202890
EST:     CTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
genomic: CTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
EST: gi|164089022|gb|ES118289.1|ES118289
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTACGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTC
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTC
EST: gi|124870065|gb|EH954502.1|EH954502
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAG
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAG
EST: gi|164051634|gb|ES182175.1|ES182175
EST:     GGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGC
genomic: GGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGG-TGGTCTTGATATCCCTCACAGTGACAAGAGATTTGC
EST: gi|124743283|gb|EH834445.1|EH834445
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGG
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGG
EST: gi|125259494|gb|EL273579.1|EL273579
EST:     CAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAG
genomic: CAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAG
EST: gi|125043149|gb|EL115418.1|EL115418
EST:     GGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
genomic: GGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
EST: gi|164237108|gb|ES062303.1|ES062303
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCT
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCT
EST: gi|164228852|gb|EL970520.1|EL970520
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGA
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGA
EST: gi|124730740|gb|EH822142.1|EH822142
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGT
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGT
EST: gi|124885529|gb|EH964431.1|EH964431
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCAC
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCAC
EST: gi|125105952|gb|EL159565.1|EL159565
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATAT
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATAT
EST: gi|164064740|gb|ES003340.1|ES003340
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGG
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGG
EST: gi|164075882|gb|ES187771.1|ES187771
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTG
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTG
EST: gi|125263094|gb|EL277179.1|EL277179
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCC-CACAGTG
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTG
EST: gi|124880602|gb|EH959504.1|EH959504
EST:     CCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
genomic: CCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGTGGTCTTGATATCCCTCACAGTGACAAGAGATTTGCT
EST: gi|124839604|gb|EH924043.1|EH924043
EST:     TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAG                         GGTGCTTTGGATGGT
genomic: TTGGACTTATCAGGACCACAACAGGAAACCGTGTGTTCGGTGCTCTTAAGgtattaactt ... gaatctgtagGGTGCTTTGGATGGT