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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAATGGGTGACTGGGGCTTTTGCTGGTCATACTGCTGTTTGTTTGAAGGATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagacctaaacattttgaagttagtggatagaaagagagatattttactatctttttccccatag

Basic information

species Arabidopsis thaliana
transcript AT1G70160.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G70160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os08g32910.1 (Oryza sativa), 5'ss of exon 3
GAAATGGGTGACTGGGGCTTTTGCTGGTCATACTGCTGTTTGTTTGAAGGATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagacctaaacattttgaagttagtggatagaaagag------agatattttact-atctttttccccatag----------------------------
||||||||||||||| || ||||||||||| ||||||||||| ||||| |||||    || | ||| |||||||  ||||||||  |||| ||| |||||||| |  ||    | || |  | | || |||  |  |       |  ||  ||  | |   ||   |  || |                            
GAAATGGGTGACTGGTGCATTTGCTGGTCACACTGCTGTTTGCTTGAAAGATGAGAACGGCACTCTCTGGGTTGCAGAATCAGGCTATGAAAACAAAAAGgtacatttatgtttctt-atttcattgtataacataattccactacctacattcttgaatcttcatcttatggatacataagcaatgcaagattaacagtt

upper sequence: AT1G70160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA18G17350.1 (Glycine max), 5'ss of exon 2
-GAAATGGGTGACTGGGGCTTTTGCTGGTCATACTGCTGTTTGTTTGAAGGATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagacctaaacattttgaagttagtggatagaaagagagatattttactatctttttccccatag----------------------------------------------------------------------------------------------------------------------
  || ||||| |||||  | || |||||||||||||| ||||| ||||||||||| | ||| ||| | ||||||||||||||||| || ||||| |||||||||     ||    || |   ||  |   |   |  |    | |||||  ||| ||      ||                                                                                                                        
AAAAGTGGGTTACTGGTTCATTCGCTGGTCATACTGCGGTTTGCTTGAAGGATGAATGGGGCAATTTATGGGTTGGTGAATCAGGGCACGAGAATGAAAAggta--ttaaagtgattcggtttttataatttttatcatttttcttttaacatcattgatgtaatcatctaaatgccagttgaacaggaattttgtaattgttccatggttgttgggggtggtgactggtgactgagctatgttttattttaattgattatagaagcataatatgtctttgtgca

upper sequence: AT1G70160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G03160.1 (Glycine max), 5'ss of exon 3
GAAATGGGTGACTGGGGCTTTTGCTGGTCATACTGCTGTTTGTTTGAAGGATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagac----ctaaacattttga--agttagtggatagaaagagagatat-tttac-tatctttttccccatag--------------------------
||| ||||| ||||| || |||||||||||||| || ||||| |||||||||||  |||| ||| | |||||||||||||| || |||||||| || |||||| |        || |||||     ||  ||| | || |  | | | |     ||  |    |||   ||||                           
GAAGTGGGTAACTGGTGCATTTGCTGGTCATACAGCAGTTTGCTTGAAGGATGAAATGGGAAATTTATGGGTTGGTGAATCTGGGCATGAGAATGAGAAGgtataaaatgtggaagattttaccttgtctgtgtacagcacaacacacacacacacacacacatttgtacatattatagacttgtcaaatttcattttaa

upper sequence: AT1G70160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA01G04400.1 (Glycine max), 5'ss of exon 3
GAAATGGGTGACTGGGGCTTTTGCTGGTCATACTGCTGTTTGTTTGAAGGATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgta---gacctaaacattttga---agttagtggatagaaaga----gagatattttactatctttttccccatag------------------------
 || ||||| ||||| || |||||||||||||| || ||||| |||||||||||  | || ||| | |||||||||||||| || |||||||| |||||||||   ||  |  |   ||| |    ||  ||| | || |  |     | | |    |  || | |||   ||||                         
AAAGTGGGTAACTGGTGCATTTGCTGGTCATACAGCAGTTTGCTTGAAGGATGAAATTGGAAATTTATGGGTTGGTGAATCTGGGCATGAGAATGAAAAGgtataagatgtggaagattttaccttgtctgtgtacagcacaacactaacacacacaaacatatatttatacatattatagatacgtcaaatttcatttt

upper sequence: AT1G70160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv01s0026g00920.t01 (Vitis vinifera), 5'ss of exon 3
GAAATGGGTGACTGGGGCTTTTGCTGGTCATACTGCTGTTTGTTTGAAGGATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagaccta----aacattttgaagtta-gtggatagaaag-------agagatattttactatctttttccccatag----------------------
 |||||||| || || || |||||||||||||| || ||||| |||||||||||   ||| ||||||||||||||||| || || || |||||||||||||||  |       ||  | ||||||  | |   || || |        | |   | | |  | | |  || | | |                        
AAAATGGGTAACAGGTGCATTTGCTGGTCATACAGCAGTTTGCTTGAAGGATGAAGAGGGTAATCTTTGGGTTGGTGAGTCGGGGCACGAGAACGAAAAGgtatgctagcagtaatgtattgaagaaaagaaaattgacaacatgcacaaaagcagtatcgtttataatttcacttgaatttctagtacggttgtatcca

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|116483746|gb|EG526338.1|EG526338
EST:     ATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAG                         GGTGAAGAAATCATTGTTGTGATCCCTTGGGATGAATGGTGGGAGCTGACT
genomic: ATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagacctaa ... ttccccatagGGTGAAGAAATCATTGTTGTGATCCCTTGGGATGAATGGTGGGAGCTGACT
EST: gi|125289582|gb|EL303667.1|EL303667
EST:     ATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAG                         GGTGAAGAAATCATTGTTGTGAT
genomic: ATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagacctaa ... ttccccatagGGTGAAGAAATCATTGTTGTGAT
EST: gi|124835515|gb|EH919954.1|EH919954
EST:     ATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAG                         GGTGAAGAAATCATTGTTGTGATCCCTTGGGATGAATGGTGGGAGCTGACT
genomic: ATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagacctaa ... ttccccatagGGTGAAGAAATCATTGTTGTGATCCCTTGGGATGAATGGTGGGAGCTGACT
EST: gi|116483745|gb|EG526337.1|EG526337
EST:     ATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAG                         GGTGAAGAAATCATTGTTGTGATCCCTTGGGATGAATGGTGGGAGCTGACT
genomic: ATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagacctaa ... ttccccatagGGTGAAGAAATCATTGTTGTGATCCCTTGGGATGAATGGTGGGAGCTGACT
EST: gi|164221870|gb|ES062620.1|ES062620
EST:     ATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAA-G                         GGTGAAGAAATCATTGTTGTGATCCCTTGGGA
genomic: ATGATTTGGGGAATCTTTGGGTTGGTGAATCAGGACATGAGAACGAAAAGgtagacctaa ... ttccccatagGGTGAAGAAATCATTGTTGTGATCCCTTGGGA
EST: gi|47831564|gb|CK121248.1|CK121248
EST:     CAGGACATGAGAACGAAAAG                         GGTGAAGAAATCATTGTTGTGATCCCTTGGGATGAATGGTGGGAGCTGACT
genomic: CAGGACATGAGAACGAAAAGgtagacctaa ... ttccccatagGGTGAAGAAATCATTGTTGTGATCCCTTGGGATGAATGGTGGGAGCTGACT