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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGATGGATATCAATGAATCTCCTGTTTATGTGCTTTTAAACCCTGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttcttataatgtcatatggttctgtgggtacattctgatatgttagcatgttagtataggtatatgcgtagttcagagtttctagatatcttcccaagtctttatctttattgacttccagatttaggtcagattgttttacaagatcctaacttttctctttgtttcattgattgatcttcattacttgaag

Basic information

species Arabidopsis thaliana
transcript AT5G56280.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os12g42730.4 (Oryza sativa), 5'ss of exon 5
TTGATGGATATCAATGAATCTCCTGTTTATGTGCTTTTAAACCCTGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttcttataatgtcatatggttctgtgggtacattctgatatgttagcatgttagtataggtatatgcgtagttcagagtttctagatatcttcccaagtctttatctttattgacttccagatttaggtcagattgttttacaagatcctaacttttctctttgtttcattgattgatcttcattacttgaag
|||||||||   | || | |  |  ||||| | || || || ||||| || || |   | | ||||||||| |||||||||||||||||||  |||| |     |  | | | | || |||    |  ||  | ||    ||| | |     ||| |||   |  ||    |||  | ||  | | ||| |||   |    ||| || | | ||     | ||    ||    | ||  ||  |     |||||||| | | | |   |||  |  |                
TTGATGGATGCTAGTGGAACAACCTTTTATCTTCTATTCAATCCTGCAATGAACCTTTCCCTGAAGGATCTCCCAGTGACTATTTATGAAAAAGgtaag-----tgaagtttgaaatcgtt----gaatatttcctaccgtgtaaaccaccaagtttagcactcagc----ttcttatttaattgctatgttcattaac--ttaactgtttagagcaataaatggttgttgtttagtgatatgaagat-taacttttttgtctctgcaatttttcaag---------------

upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G028089_T01 (Zea mays), 5'ss of exon 3
TTGATGGATATCAATGAATCTCCTGTTTATGTGCTTTTAAACCCTGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttcttataatgtcatatggttctgtgggtacattctgatatgttagcatgttagtataggtatatgcgtagttcagagtttctagatatcttcccaagtctttatctttattgacttccagatttaggtcagattgttttacaagatcctaacttttctctttgtttcattgattgatcttcattacttgaag
||||||||| | || |||   ||||||||| | || ||||| ||| ||||||| | | | ||||||||||| || |||||||||||||| ||||||| |              |||||| | |  |      ||  ||  |||||   |  |   |   || | | |   |||  |   | |     | ||    | |       ||||| |||                                                                               
TTGATGGATGTTAACGAAAGCCCTGTTTATCTTCTATTAAATCCTACTATCAACCTCTCCCAGAAGGATCTCCCTGTGACTATTTATGAGAGTGgtaagtca-----------atatggatttaag------tttggaattgttaatgtagtgcaacttgtttctcctgtgtttggttctaccctgaacctgtttatgc----gactttagtgat------------------------------------------------------------------------------

upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA04G12890.1 (Glycine max), 5'ss of exon 3
TTGATGGATATCAATGAATCTCCTGTTTATGTGCTTTTAAACCCTGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttcttataatgtcatatggttctgtgggtacattctgatatgttagcatgttagtataggtatatgcgtagttcagagtttctagatatcttcccaagtctttatctttattgacttccagatttaggtcagattgttttacaagatcctaacttttctctttgtttcattgattgatcttcattacttgaag
||||||||||||||||||  ||| |||||||| ||| | || ||| ||||||||||  | ||||||||||| || || | ||||| ||||||||||| |       |||| ||  ||             |||| || ||| |||| |||| | | |   |  |  |  ||||   |   |  | | |  ||  ||||     | ||||| | |||                                                                             
TTGATGGATATCAATGAAAGTCCAGTTTATGTTCTTCTCAATCCTTCTATCAATCATTCTCAGAAGGATCTACCTGTCAGTATTTTTGAAAGTGgtacg-------taatctc-cat-------------cattgtgttat-ttagtatgtgattgttttttcaaccacagttgcaaaaatgaaaaaacattaacaaggaaagaactttagttact-----------------------------------------------------------------------------

upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA06G47850.1 (Glycine max), 5'ss of exon 3
TTGATGGATATCAATGAATCTCCTGTTTATGTGCTTTTAAACCCTGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttcttataatgtcatatggttctgtgggtacattctgatatgttagcatgttagtataggtatatgcgtagtt-cagagtttctagatatcttcccaagtctttatctttattgacttccagatttaggtcagattgttttacaagatcctaacttttctctttgtttcattgattgatcttcattacttgaag
||||||||||||||||||  ||| |||||||| ||| | || ||| ||||||| ||  | ||||||||||| || || | ||||| ||||||||||| |       |||| ||  ||             |||| || ||| |||| |||| | | |   |  |  |  |||| || |  |   | |    ||   |||     | ||||| | ||                                                                              
TTGATGGATATCAATGAAAGTCCAGTTTATGTTCTTCTCAATCCTTCTATCAACCATTCTCAGAAGGATCTACCTGTCAGTATTTTTGAAAGTGgtaag-------taatctc-cat-------------cattgtgttat-ttagtatgtgactgttttttcaaccacagttgcaaaaatgaaaaaagcattaataaggaaagagctttagttac------------------------------------------------------------------------------

upper sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv19s0015g01950.t01 (Vitis vinifera), 5'ss of exon 3
TTGATGGATATCAATGAATCTCCTGTTTATGTGCTTTTAAACCCTGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttcttataatgtcatatggttctgtgggtacattctgatatgttagcatgttagtataggtatatgcgtagttcagagtttctagatatcttcccaagtctttatctttattgacttccagatttaggtcagattgttttacaagatcctaacttttctctttgtttcattgattgatcttcattacttgaag
||||||||||| ||||||   ||||| ||||| ||| | || ||  | ||||||||  |||| |||||||| || |||||||| |||||||||||||||   |   | || |  |||  |  |      ||   || ||| || |   ||  ||| ||   | |     |||   || | | || |  |  ||  |  |                                                                                              
TTGATGGATATTAATGAAAGCCCTGTCTATGTTCTTCTCAATCCGTCAATCAATCATGCACAAAAGGATCTCCCTGTGACTATCTATGAAAGTGgtatgtaacccttcatttt-tatcttcttcctttaactcccttataagtgattctgcaagtctataaaaaaaaa-agt---gattctgtaaagttgatcttatat----------------------------------------------------------------------------------------------

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|86054010|gb|DR349767.1|DR349767
EST:     TGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTG                         AATTGCATGTCATTGATGGAATCCCGCAGCTAATTTTCGCTCATACAAGCT
genomic: TGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttct ... ttacttgaagAATTGCATGTCATTGATGGAATCCCGCAGCTAATTTTCGCTCATACAAGCT
EST: gi|86054007|gb|DR349764.1|DR349764
EST:     TGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTG                         AATTGCATGTCATTGATGGAATCCCGCAGCTAATTTTCGCTCATA
genomic: TGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttct ... ttacttgaagAATTGCATGTCATTGATGGAATCCCGCAGCTAATTTTCGCTCATA
EST: gi|164069766|gb|ES023136.1|ES023136
EST:     TCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTG                         AATTGCATGTCATTGATGGAATCCCGCAGCTAATTTTCGCTCATACAAGC
genomic: TCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttct ... ttacttgaagAATTGCATGTCATTGATGGAATCCCGCAGCTAATTTTCGCTCATACAAGC
EST: gi|19876192|gb|AU237023.1|AU237023
EST:     TGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTG                         AATTGCATGTCATTGATGGAATCCCGCAGCTAATTTTCGCTCATACAAGCT
genomic: TGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttct ... ttacttgaagAATTGCATGTCATTGATGGAATCCCGCAGCTAATTTTCGCTCATACAAGCT
EST: gi|86054006|gb|DR349763.1|DR349763
EST:     TGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTG                         AATTGCATGTCATTGATGGAATCCCGCAGCTAATTTTCGCTCATACAAGCT
genomic: TGCTATCAATCACACACAGAAGGATCTTCCAGTGACTATTTATGAAAGTGgtatgcttct ... ttacttgaagAATTGCATGTCATTGATGGAATCCCGCAGCTAATTTTCGCTCATACAAGCT