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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAGGAGCATGTTGTAGGTTGGTACAGCACAGGCCCTAAACTTCGAGAGAATGATTTGGATGTTCACGCGTTGTTCAATGGgttagtttccagtttaatcattcagatatcaattgattggcctttatggattgaggatcttctggttcttaaattgtgataaagatttgttttaggctgaaatctgtgtttctttcccactttacgttttttgtggcttcggtttcatctccaattaaggttcactttgcttttggttttgcag

Basic information

species Arabidopsis thaliana
transcript AT5G05780.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 3
CCAAGGAGCATGTTGTAGGTTGGTACAGCACAGGCCCTAAACTTCGAGAGAATGATTTGGATGTTCACGCGTTGTTCAATGGgttagtttccagtttaatcattcagatatcaattgattggcctttatggattgaggatcttctggttcttaaattgtgataaagatttgttttaggctgaaatctgtgtttctttcccactttacgttttttgtggcttcggtttcatctccaattaaggttcactttgcttttggttttgcag
|||||||||||||||| || ||||||||||| ||||| |||||  | |||||||| |||||||| || || ||||||||  |||  | |         | | | ||  |   || | ||   |  |||||| |    | |||| |      | |||         ||   | | ||| |  | || |   ||||    |                                                                   
CCAAGGAGCATGTTGTTGGCTGGTACAGCACTGGCCCAAAACTAAGGGAGAATGACTTGGATGTCCATGCATTGTTCAACAGgtgtggt--------gaacctgcaagtg--aagttatgtcctcttatggtt----gttcttttaaactcttaatacaacccctga---gctatagacaaatatgtaaatttccaaac-------------------------------------------------------------------

upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G061745_T03 (Zea mays), 5'ss of exon 3
CCAAGGAGCATGTTGTAGGTTGGTACAGCACAGGCCCTAAACTTCGAGAGAATGATTTGGATGTTCACGCGTTGTTCAATGGgttagtttccagtttaatcattcagatatcaattgattggcctttatggattgaggatcttctggttcttaaattgtgataaagatttg----ttttaggctgaaatctgtgtttctttcccactttacgttttttgtggcttcggtttcatctccaattaaggttcactttgcttttggttttgcag
|||||||||||||||| || ||||||||||| ||||| |||||  | ||||| || |||||||| || || || |||||  ||| | | |  || |   || |   |  ||   |   |||  ||     |  |||  || || | | |  |    |  | ||    | ||    ||||  ||  |                                                                                    
CCAAGGAGCATGTTGTTGGCTGGTACAGCACTGGCCCAAAACTAAGGGAGAACGACTTGGATGTCCATGCATTATTCAACAGgt-attgtgaagctatgtcctcttgtgattgttcttttgaactc----gtgtgacaattttttaggtactgtcctaagttacgagtgtgtaacttttcagccaac-----------------------------------------------------------------------------------

upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv02s0025g01490.t01 (Vitis vinifera), 5'ss of exon 3
CCAAGGAGCATGTTGTAGGTTGGTACAGCACAGGCCCTAAACTTCGAGAGAATGATTTGGATGTTCACGCGTTGTTCAATGGgttagttt-ccagtttaatcattcagatatcaattgattggcctttatggattgaggatcttctggttcttaaattgtgataaagatttgttttaggctgaaatctgtgtttctttcccactttacgttttttgtggcttcggtttcatctccaattaaggttcactttgcttttggttttgcag
|||||||||||||||| |||||||| |||||||| || ||||| || ||||||||| | ||| |||||    | ||| ||| || || |    | |||  | ||||  |||   | ||||  |  || ||| |           ||   |||||  || ||  ||| | |  ||||   |||| || | |||     | |                                                                   
CCAAGGAGCATGTTGTTGGTTGGTATAGCACAGGACCAAAACTGCGGGAGAATGATCTAGATATTCACAGACTATTCCATGAgtgagctcattaattt--ttattcttata---aatgat--gtgttaatgaaa----------cttaatctta--ttctggaaaaaactgtttttcaactgatatgtttgtgaagcttca------------------------------------------------------------------

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|124943617|gb|EL019786.1|EL019786
EST:     GGCCCTAAACTTCGAGAGAATGATTTGGATGTTCACGCGTTGTTCAATGG                         CTATGTTCCAAATCCAGTCCTGGTCATTATTGA
genomic: GGCCCTAAACTTCGAGAGAATGATTTGGATGTTCACGCGTTGTTCAATGGgttagtttcc ... ggttttgcagCTATGTTCCAAATCCAGTCCTGGTCATTATTGA
EST: gi|125308896|gb|EL322981.1|EL322981
EST:     AGAATGATTTGGATGTTCACGCGTTGTTCAATGG                         CTATGTTCCAAATCCAGTCCTGGTCATTATTGAATGTCCAGCCTAAAGAAC
genomic: AGAATGATTTGGATGTTCACGCGTTGTTCAATGGgttagtttcc ... ggttttgcagCTATGTTCCAAATCCAGTCCTGGTCATTATTGA-TGTCCAGCCTAAAGAAC
EST: gi|47831858|gb|CK121542.1|CK121542
EST:     GGCCCTAAACTTCGAGAGAATGATTTGGATGTTCACGCGTTGTTCAATGG                         CTATGTTCCAAATCCAGTCCTGGTCATTATTGATGTCCAGCCTAAAGAACT
genomic: GGCCCTAAACTTCGAGAGAATGATTTGGATGTTCACGCGTTGTTCAATGGgttagtttcc ... ggttttgcagCTATGTTCCAAATCCAGTCCTGGTCATTATTGATGTCCAGCCTAAAGAACT