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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataagatgagatttatacatactatgctaagtggggattaaggtcaattggtttgtctaggtaaaaacccattaattgttttggatacacag

Basic information

species Arabidopsis thaliana
transcript AT1G78900.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: LOC_Os06g45120.1 (Oryza sativa), 5'ss of exon 17
ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataagatgagatttatacatactatgctaagtggggattaaggtcaattggtttgtctaggt--aaaaacccattaattgttttggatacacag--
||||||||| |||||||| ||||||||||| || ||||||||||| |||||||| |||||| | |   |||| || |||||||||   | | | |||   ||  |  | |    | |    | |  | | |         | | |   |||    |   ||     ||   | |  |  
ATATGACAAGTTCTGTCCATTCTACAAGTCTGTTTGGATGATGCGCAACATTATTCATTTCAATACATTAGCAAATCAGgtaaatctaacgtgtttttaccactcctttcgtccttgaaccttaaattactcaagcaactttgatttgaaatttgaagtatgaacctgtgaagaatgtt

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataagatgagatttataca--tactatg---ctaagtggggattaaggtcaattg--gtttgtctaggtaaaaacccattaattgttttggatacacag
|||||| || ||||| || |||||||| ||||| ||||||||||| |||||||| || ||| |||   | || || |||||||      | |     |  |   |  | ||   | ||      || |   |  ||||  | |   |  | ||  |    |||  ||  |   |||      
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaaccaatcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagatttg---

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA08G23990.1 (Glycine max), 5'ss of exon 18
ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgta-aataagatgag-atttatacatact---atgctaagtggggatta-aggtcaattggtttgtctaggtaaaaacccattaattgttttggatacacag
||||||||||||||| || ||||||||||| || ||||||||||| ||||||||||||||||||||  | || || ||||||   |    | || | | |  ||   |    || |   |    |||| |    |   |    ||| | ||||  |        | | ||    |  ||  
ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAGgtatggtggtgtaaggaatcaggcagtttttggtgttttatttatattagaaaaaagaagaaaagtccatgtaatcattggcatctaggttcaagt-tact-

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA07G00430.1 (Glycine max), 5'ss of exon 18
ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgta-aataagatgag-atttatacatactatg----ctaagtggggattaaggtcaattggtttgtctaggtaaaaacccattaattgttttggatacacag
|||||| ||||| || || ||||||||||| || ||||||||||| ||||||||||||||||||||  | || || ||||||   ||   | || | | |  ||   | ||     | | |     |  |    |   |    ||| | ||||  |        | | ||    |  ||  
ATATGATAAATTTTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAGgtatggtagtgtaaggaatcaggcagtttttggtgttttatttatactagaaaaaagaagaaaagtccatgtaatcattggcatctaggttcaagt-tact-

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 5'ss of exon 18
ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgta-aataagatgagatttatacatactatgctaagtggggattaaggtcaattggtttgtctaggtaaaaacccatt------aattgttttggatacacag
|||||| || ||||| || ||||||||||| || ||||||||||| || |||||||||||||| ||  | ||||| ||||||  ||         | | |   | |    |          ||    |   |   |||| |    |     |   ||       ||  || ||  |  |   
ATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAGgtacgatgttcctctctctctctttccaccccccctcccccgttttcctttttctctttgacctattgttgtcatgtttgccaagatcattgtgtctgta---

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataagatg-------agatttatacatactatg---ctaagtggggattaaggtcaattggtttgtctaggtaa-aaacccattaattgttttggatacacag----------------------------------------------------------------------
 |||||||||||||| || ||||||||||| ||||||||||||||||| ||| |||| ||| |||  || || || |||||      | |        |  ||| |   || |||    ||          |    | ||||| ||  |  |  |   ||| |  | | |||||     |     |                                                                      
TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattccaaaatgtttttgtttattatttatcttttcctcctcttttttgaattgattcattaatttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: EFJ33015 (Selaginella moellendorffii), 5'ss of exon 17
ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataagatgagatttatacatactatgctaagtggggattaaggtcaattggtttgtctaggtaaaaacccattaattgttttggatacacag
||| || || || ||||| |||||||||||||| ||||||||||| |||||  | ||||||| | ||||  |||  ||||||   |   ||  ||   |   |    | ||   ||   ||| |  |    | |                                         
ATACGATAAGTTTTGTCCGTTCTACAAGTCCGTTTGGATGATGCGAAACATCGTTCATTTCTGCGACCTGTCCACTCAGgtatgcac--tgccatacctctttcacgtcct---tgaaaatttactttctcttgcag--------------------------------------

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: EFJ30330 (Selaginella moellendorffii), 5'ss of exon 18
ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataagatgagatttatacatactatgctaagtggggattaaggtcaattggtttgtctaggtaaaaacccattaattgttttggatacacag
||| || || || ||||| |||||||||||||| ||||||||||| |||||  ||||||||| | ||||  |||  ||||||   |           |||| |  |   |    | |  |||        ||  ||| ||| |                                
ATACGATAAGTTTTGTCCGTTCTACAAGTCCGTTTGGATGATGCGAAACATCGTCCATTTCTGCGACCTGTCCACTCAGgtatgcactgc------catacctctttcacgtccttgaaatt--------ttactttctcttgcag-----------------------------

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|116484152|gb|EG526744.1|EG526744
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116484817|gb|EG527409.1|EG527409
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116423655|gb|EG466247.1|EG466247
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116423878|gb|EG466470.1|EG466470
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|124935587|gb|EL012560.1|EL012560
EST:     TTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: TTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116423877|gb|EG466469.1|EG466469
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116467266|gb|EG509858.1|EG509858
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116484141|gb|EG526733.1|EG526733
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116452176|gb|EG494768.1|EG494768
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|164015096|gb|ES097749.1|ES097749
EST:     GATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: GATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|124745663|gb|EH836475.1|EH836475
EST:     GTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAAGATTA
genomic: GTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAA-GATTA
EST: gi|86077026|gb|DR372783.1|DR372783
EST:     CCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGWGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116436722|gb|EG479314.1|EG479314
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116424281|gb|EG466873.1|EG466873
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116452175|gb|EG494767.1|EG494767
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116456041|gb|EG498633.1|EG498633
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116433583|gb|EG476175.1|EG476175
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|125058515|gb|EL127281.1|EL127281
EST:     CGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGACCAACCAG                         GCGGTTGAGAGAGCAGCT
genomic: CGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAG-CCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCT
EST: gi|116423654|gb|EG466246.1|EG466246
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116451304|gb|EG493896.1|EG493896
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116424219|gb|EG466811.1|EG466811
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
EST: gi|116468179|gb|EG510771.1|EG510771
EST:     CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAG                         GCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT
genomic: CCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataaga ... ggatacacagGCGGTTGAGAGAGCAGCTGGAATGGACGGTCAAAAGATTACCTACACTCTT