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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCCAGGCCGGCAAAACGATCGTAAGACATTGTTAGGGGAGTTGAACTGGATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgtacttctccaaactttctgcataatttatcaagggtaaatcttcttcaagttgacttcttttctgtgtcctcatgaatgatagttttaccctgcag

Basic information

species Arabidopsis thaliana
transcript AT3G08850.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 5'ss of exon 7
ATTCCAGGCCGGCAAAACGATCGTAAGACATTGTTAGGGGAGTTGAACTGGATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgtacttctccaaactttctgcataatttat--caagggtaaatcttcttcaagttgacttcttttctgtgtcctcatgaatgatagttttaccctgcag
||||| ||  ||||||| || || || ||  |  ||||||||||||||||||||||||| ||  | || || || ||||| |||||||| |||||||||||||||  |      |||    | |||| ||  ||  | | |||    |||   || | ||  |||   | |  | |||| | | | ||| ||   ||||
ATTCCTGGAAGGCAAAATGACCGCAAAACTCTTCTAGGGGAGTTGAACTGGATTTTCACTGCTATCACAGACACTATTGCATGGAATGTTCTTCCTCATGgtactgatagtcgttttagttacaattaatgccagtgatcaattgctttctcattcattttcttttaatctgtt-atgattca-actttcactgcgcag

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 5'ss of exon 6
ATTCCAGGCCGGCAAAACGATCGTAAGACATTGTTAGGGGAGTTGAACTGGATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgtacttctccaaactttctgcataatttat--caagggtaaatcttcttcaagttgacttcttttctgtgtcctcatgaatgatagttttaccctgcag
||||| ||  ||||||| || || || ||  |  ||||||||||||||||||||||||| ||  | || || || ||||| |||||||| |||||||||||||||  |    | |||   || |||| ||  ||  | | |||    |||   || | ||  |||   | |  | |||| | | | ||| ||   ||||
ATTCCTGGAAGGCAAAATGACCGCAAAACTCTTCTAGGGGAGTTGAACTGGATTTTCACTGCTATCACAGACACTATTGCATGGAATGTTCTTCCTCATGgtactgatagtcattttaatcacaattaatgccagtgatcaattgctttctcattcattttcttttaatctgtt-atgattca-actttcactacgcag

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G048067_T02 (Zea mays), 5'ss of exon 7
ATTCCAGGCCGGCAAAACGATCGTAAGACATTGTTAGGGGAGTTGAACTGGATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgta---cttctccaa-----actttctgca---taatttatcaagggtaaatcttc----ttcaagttgacttct---tttctgtgtcctcatgaatgatagttttaccctgcag
||||| ||  ||||||| || ||||| ||  |  | |||||| | || |||||||| || ||  | || ||||||||||| |||||||| |||||||||||||   | ||| | |     ||||| ||      ||   | | || | ||||  |     |||||  | | |      ||  | ||   | |||| |   ||||| ||  |||||
ATTCCTGGAAGGCAAAATGACCGTAAAACTCTTCTTGGGGAGCTCAATTGGATTTTTACTGCTATAACAGATACAATTGCATGGAATGTTCTTCCTCATGgtatggcgtctgcgatgtatactttttggggatcaagaaaactagagaaaattattcaaattcaaaataaatgtcagcttattttgggtttatga-tacaagtttcactgtgcag

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA18G44210.1 (Glycine max), 5'ss of exon 7
ATTCCAGGCCGGCAAAACGATCGTAAGACATTGTTAGGGGAGTTGAACTGGATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgta--------cttctccaaactttctgca-------taatttatcaaggg-------taa-atcttc-----ttcaagttg--acttc----ttttctgtgtcct-catgaatgatagttttaccctgcag
|| || ||||| | ||| || || |||||| |  | || || ||||| ||||| || |||||||| || ||||| ||||| |||||||| |||||||||||||        ||   || | | ||||||        ||| ||| || ||        ||  |||| |     ||||   ||  | ||     |||| | |||| | |||  || ||  ||||   ||||||
ATCCCTGGCCGTCCAAATGACCGAAAGACACTTCTGGGTGAATTGAATTGGATCTTTACAGCAGTAACTGATACGATTGCCTGGAATGTTCTTCCTCATGgtaggtctcaactctccctatccttctgctgacttgctaaattaacatggtatttttttagcatctccagtgattcagcatgcaattttggtattttttttgtcttacattgatcattattttgttctgcag

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA09G41510.1 (Glycine max), 5'ss of exon 7
ATTCCAGGCCGGCAAAACGATCGTAAGACATTGTTAGGGGAGTTGAACTGGATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgta--------cttctccaaactttctgca-------taatttatcaagggtaa-------atcttcttcaagttgacttc--ttttctgtgtcct-catgaatgatagttttaccctgcag-------
|| || ||||| | ||| || || |||||| |  | || || ||||| ||||| || ||||| || || ||||| ||||| |||||||| |||||||||||||        |    || | | ||||||        ||| ||| || || |         |||| |    | ||  | |   ||||  || || | |||  || ||  ||||   |||||        
ATCCCTGGCCGTCCAAATGACCGAAAGACACTTCTGGGTGAATTGAATTGGATCTTTACAGCCGTAACTGATACGATTGCCTGGAATGTTCTTCCTCATGgtaggtctcaaccctccccatccttctgccgacttactaaattaacatggtttttttttccatctccagtgatttagcatgcatttttggtatcttacattgatcattattttgttctgcactctgcag

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 5'ss of exon 7
ATTCCAGGCCGGCAAAACGATCGTAAGACATTGTTAGGGGAGTTGAACTGGATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgtacttctccaaactttctg-cataatttatcaagggtaaatcttcttcaagtt---gacttcttttctgtgtcctcatga----------atgatagttttaccctgcag
||||| ||||| ||||| || || || ||| | || || ||  |||||||||| || ||||||||||| || || |||||||||||||| ||||| ||||||| ||       ||| |||   | ||  | || | | ||       | || ||    | || ||||   | |||| | |           ||  |  ||||   ||||||
ATTCCTGGCCGCCAAAATGACCGCAAAACACTTTTGGGAGAACTGAACTGGATCTTTACAGCAGTGACTGACACCATTGCTTGGAATGTTCTTCCCCATGgtaatttaattggcttactgattttatgcagcatgagcaatcagctgttaaatttttaatttgtttttattctccttacggtggtatatgcatatttattttgtgctgcag

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S199_73V6.1 (Physcomitrella patens), 5'ss of exon 7
ATTCCAGGCCGGCAAAACGATCGTAAGACATTGTTAGGGGAGTTGAACTGGATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgtacttctccaaactttctgcataa---tttatcaagggtaaatcttcttcaagt---tgacttcttttctgtgtcctcatgaatgatagttttaccctgcag---------------------------------------------------
|| ||||| || ||||||||||| |||||    || |||||| |||| ||||| ||||||||  | || ||||||||||| ||||||||||| || |  |||            ||  ||        ||| |     | |||| |   | |      | || |    |      | |     || | |   | |   || |                                                    
ATACCAGGTCGTCAAAACGATCGGAAGACTCCCTTGGGGGAGCTGAATTGGATATTCACAGCTATAACAGATACAATTGCGTGGAATGTGCTGCCGCGAGgtcagctgttgtttttcatgttcggatcttttttgtttgaaaatttaagttagaggtataacgtaaagttgaaagcttggaacataaaatggtcattttggatgtggtgtgataattacgatctcagttagcatcttgcacttggacgacgcag

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|116411083|gb|EG453675.1|EG453675
EST:     GATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATG                         AACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCC
genomic: GATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgtacttctcc ... taccctgcagAACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCC
EST: gi|116411080|gb|EG453672.1|EG453672
EST:     GATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATG                         AACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCC
genomic: GATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgtacttctcc ... taccctgcagAACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCC