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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAAATACCATTTCCACTGACTCAGAGGTTCAGATCAATGTTACAGAATGGCATTGACTTGAGCACTGTCGATGTTAGCTATGTGAGTAGTCGTTCCTGgtaagtactcaaattacacaaaggactttgtgttatccggtcctcttcagattttcagtatgctaatcatatttgcttctggatatttgccctttctcttttttttttttatgagtttttctttcgctcttcag

Basic information

species Arabidopsis thaliana
transcript AT4G12590.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G12590.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G08370.1 (Glycine max), 5'ss of exon 3
-CCAAAATACCATTTCCACTGACTCAGAGGTTCAGATCAATGTTACAGAATGGCATTGACTTGAGCACTGTCGATGTTAGCTATGTGAGTAGTCGTTCCTGgtaagtactcaaattacacaaaggactttgtgttatccggtcctcttcagattttcagtatgctaatcatatttgcttctggatatttgccctttctcttttttttttttatgagtttttctttcgctcttcag
 |||| ||||| |||||| |||| |||||||| || |||||| |||||||||| || ||| | ||||| || |||||||||||||| || ||||| || |||||| |  |||  ||    |  |   |||   |  | |  || |  || | |||  | | || | |     | |  | |                                                       
GCCAAGATACCCTTTCCATTGACACAGAGGTTTAGGTCAATGCTACAGAATGGAATAGACCTTAGCACCGTAGATGTTAGCTATGTCAGCAGTCGCTCTTggtaa-tcttcatttt---tatggatatttacctgcttcactctttctctggttt--aat-tgttgaaagattgtattaca------------------------------------------------------

upper sequence: AT4G12590.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G44410.1 (Glycine max), 5'ss of exon 6
CCAAAATACCATTTCCACTGACTCAGAGGTTCAGATCAATGTTACAGAATGGCATTGACTTGAGCACTGTCGATGTTAGCTATGTGAGTAGTCGTTCCTGgtaagtactcaaattacacaaaggactttgtgttatccggtcctcttcagattttcagtatgctaatcatatttgcttctggatatttgccctttctcttttttttttttatgagtttttctttcgctcttcag
|||| ||||| |||||| |||| |||||||| || |||||| ||||||| || || ||| | ||||| || |||||||||||||| || ||||| || |||||| |  |||  ||    |  |  |||    |  | |  || |  || | |||  | ||  | ||  || |    ||| |                                                     
CCAAGATACCCTTTCCATTGACACAGAGGTTTAGGTCAATGCTACAGAACGGAATAGACCTTAGCACAGTAGATGTTAGCTATGTCAGCAGTCGCTCTTGgtaa-tcttcatttt---tatggatcttcacctgtttcactcatactctggttt--aatagtcaaaagat-tgcatttcag-----------------------------------------------------

upper sequence: AT4G12590.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv00s0187g00170.t01 (Vitis vinifera), 5'ss of exon 5
CCAAAATACCATTTCCACTGACTCAGAGGTTCAGATCAATGTTACAGAATGGCATTGACTTGAGCACTGTCGATGTTAGCTATGTGAGTAGTCGTTCCTGgtaagtactcaa-attacaca-aaggactttgtgttatccggtcctcttcagattttcagtatgctaatcatatttgcttctggatatttgccctttctcttttttttttttatgagtttttctttcgctcttcag
|||| ||||| || ||  |||||||||||||  | || |||||||| ||||| ||||| ||||||||||| |||||||||||||| || ||||| || |||||  | || || || |   | ||| |   | |    ||| | ||| |  |   |||   | ||    | |||||  | | | ||    ||  ||   | | || |  |||  ||   | || | ||         
CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATGGAATTGATTTGAGCACTGTAGATGTTAGCTATGTCAGCAGTCGCTCATGgtacttgcttaatatcaagaacaagaaagctattacttccag-cctgtcaaatcttttgctttgaatttgatattaacctttagaacactgggctgaatgtcttctaatttgctgtaatcttttatcag-------

upper sequence: AT4G12590.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv00s0187g00220.t01 (Vitis vinifera), 5'ss of exon 5
CCAAAATACCATTTCCACTGACTCAGAGGTTCAGATCAATGTTACAGAATGGCATTGACTTGAGCACTGTCGATGTTAGCTATGTGAGTAGTCGTTCCTGgtaagtactcaa-attacaca-aaggactttgtgttatccggtcctcttcagattttcagtatgctaatcatatttgcttctggatatttgccctttctcttttttttttttatgagtttttctttcgctcttcag
|||| ||||| || ||  |||||||||||||  | || |||||||| ||||| ||||| ||||||||||| |||||||||||||| || ||||| || |||||  | || || || |   | ||| |   | |    ||| | ||| |  |   |||   | ||    | |||||  | | | ||    ||  ||   | | || |  |||  ||   | || | ||         
CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATGGAATTGATTTGAGCACTGTAGATGTTAGCTATGTCAGCAGTCGCTCATGgtacttgcttaatatcaagaacaagaaagctattacttccag-cctatcaaatcttttgctttgaatttgatattaacctttagaacactgggctgaatgtcttctaatttgctgtaatcttttatcag-------

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|164192835|gb|EL981742.1|EL981742
EST:     TGTGAGTAGTCGTTCCTA                         GTACTTCTTGAACTTGTTTGGATTAAGAGGCTTGTTCAGTCTCATTCTCGG
genomic: TGTGAGTAGTCGTTCCTGgtaagtactc ... cgctcttcagGTACTTCTTGAACTTGTTTGGATTAAGAGGCTTGTTCAGTCTCATTCTCGG
EST: gi|86079343|gb|DR375100.1|DR375100
EST:     GGCATTGACTTGAGCACTGTCGATGTTAGCTATGTGAGTAGTCGTTCCTG                         GTACTTCTTGAACTTGTTTGGATTAAGAGGCTTGTTCAGTCTCATTCTCGG
genomic: GGCATTGACTTGAGCACTGTCGATGTTAGCTATGTGAGTAGTCGTTCCTGgtaagtactc ... cgctcttcagGTACTTCTTGAACTTGTTTGGATTAAGAGGCTTGTTCAGTCTCATTCTCGG