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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGCTTATGTTTAAGAAAGAATTTGATTCAAGCTTTGTCGGGTTTATGGTCGATGGGGCGAAATGGTTGGTTGAAAATACAGACATCAAACTTGTTGgtaagagatggaattatttggtttagttagcttttaatttttattatgttgtatttattaacttgtattacatttcatctag

Basic information

species Arabidopsis thaliana
transcript AT1G44542.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G44542.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G061702_T01 (Zea mays), 5'ss of exon 4
GAGGCTTATGTTTAAGAAAGAATTTGATTCAAGCTTTGTCGGGTTTATGGTCGATGGGGCGAAATGGTTGGTTGAAAATACAGACATCAAACTTGTTGgtaag--agatggaattatttggt--ttagttagcttttaatttttattatgttgtatttatta-acttgtattacatttcatc--tag------------
 | ||||||||  ||||||||||||||| |||| | ||| || || |||   ||||| ||  ||||||||||||| ||||||||||||||||| |||||||||   | |  | |||   |||  || ||  ||||  |||  |  || | ||| |||||  | | || | |  | ||| |||  |||            
AAAGCTTATGTGGAAGAAAGAATTTGATACAAGTTATGTTGGCTTCATGAAGGATGGTGCACAATGGTTGGTTGATAATACAGACATCAAACTAGTTGgtaagttggttctatttaaagggtcatttgtgggcttgcaataatatttctattgaatttagaatatttatgtccc-ttttatcagtagtagttaatcgta

upper sequence: AT1G44542.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G061702_T04 (Zea mays), 5'ss of exon 4
GAGGCTTATGTTTAAGAAAGAATTTGATTCAAGCTTTGTCGGGTTTATGGTCGATGGGGCGAAATGGTTGGTTGAAAATACAGACATCAAACTTGTTGgtaag--agatggaattatttggt--ttagttagcttttaatttttattatgttgtatttatta-acttgtattacatttcatc--tag------------
    |||||||  ||||||||||||||| |||| | ||| || || |||   ||||| ||  ||||||||||||| ||||||||||||||||| |||||||||   | |  | |||   |||  || ||  ||||  |||  |  || | ||| |||||  | | || | |  | ||| |||  |||            
----CTTATGTGGAAGAAAGAATTTGATACAAGTTATGTTGGCTTCATGAAGGATGGTGCACAATGGTTGGTTGATAATACAGACATCAAACTAGTTGgtaagttggttctatttaaagggtcatttgtgggcttgcaataatatttctattgaatttagaatatttatgtccc-ttttatcagtagtagttaatcgta

upper sequence: AT1G44542.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G138744_T01 (Zea mays), 5'ss of exon 3
GAGGCTTATGTTTAAGAAAGAATTTGATTCAAGCTTTGTCGGGTTTATGGTCGATGGGGCGAAATGGTTGGTTGAAAATACAGACATCAAACTTGTTGgtaag--agatggaattatttggt--ttagttagcttttaatttttattatgttgtatttatta-acttgtattacatttcatctag--------------
 |  ||| ||   ||||||||||||||| |||| | ||| || || |||   ||||| ||  ||||||||||||| ||||||||||||||||| |||||||||   | |  | |||   |||  || ||  ||||  ||   |  || | ||| |||||  | | || | |  | ||| |||                 
AAAACTTGTGG--AAGAAAGAATTTGATACAAGTTATGTTGGCTTCATGAAGGATGGTGCACAATGGTTGGTTGATAATACAGACATCAAACTAGTTGgtaagttggttctatttaaagggtcatttgtgggcttgcaacaatatttctattgaatttagaatatttatgtccc-ttttatcagtactagttaatcgta

upper sequence: AT1G44542.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G061702_T03 (Zea mays), 5'ss of exon 5
GAGGCTTATGTTTAAGAAAGAATTTGATTCAAGCTTTGTCGGGTTTATGGTCGATGGGGCGAAATGGTTGGTTGAAAATACAGACATCAAACTTGTTGgtaag--agatggaattatttggt--ttagttagcttttaatttttattatgttgtatttatta-acttgtattacatttcatc--tag------------
                                                    ||||| ||  ||||||||||||| ||||||||||||||||| |||||||||   | |  | |||   |||  || ||  ||||  |||  |  || | ||| |||||  | | || | |  | ||| |||  |||            
----------------------------------------------------GATGGTGCACAATGGTTGGTTGATAATACAGACATCAAACTAGTTGgtaagttggttctatttaaagggtcatttgtgggcttgcaataatatttctattgaatttagaatatttatgtccc-ttttatcagtagtagttaatcgta

upper sequence: AT1G44542.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G26310.1 (Glycine max), 5'ss of exon 4
GAGGCTTATGTTTAAGAAAGAATTTGATTCAAGCTTTGTCGGGTTTATGGTCGATGGGGCGAAATGGTTGGTTGAAAATACAGACATCAAACTTGTTGgtaagagatgga--attattt--ggtttagttagcttttaatttttatta--tgttgtatttattaacttgtattacat-ttcatctag------------
|   || ||||||||||||||||||||  |||||| ||| || || | ||  ||||| || |||||| |||  || || || |||||||||||||| ||||||| || ||  | | |||  | | | | | |||| |    ||| |    ||||  | | ||  ||  ||     || || ||||              
GCAACTCATGTTTAAGAAAGAATTTGACACAAGCTATGTGGGATTCAAGGAGGATGGTGCAAAATGGCTGGCAGAGAACACTGACATCAAACTTGTAGgtaagatatagatgactttttaagatatgggttgcttcttccctttgtctcttgttcgactcat-gacaggttccttatctttatcttacttttgtcttga

upper sequence: AT1G44542.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G40960.1 (Glycine max), 5'ss of exon 4
GAGGCTTATGTTTAAGAAAGAATTTGATTCAAGCTTTGTCGGGTTTATGGTCGATGGGGCGAAATGGTTGGTTGAAAATACAGACATCAAACTTGTTGgtaagagatgga--attattt--ggtttagttagctttt-----------aatttttattatgttgtatttattaacttgtattacatttcatctag----
| | || ||||||||||||||||||||  |||||| ||| || || | ||  ||||| || |||||| |||  || || || |||||||||||||| ||||||| || ||  | | |||  | | | | | |||| |           |   |||  | |||  | ||  |  |||  |      || | | ||     
GCGACTCATGTTTAAGAAAGAATTTGACACAAGCTATGTGGGATTCAAGGAGGATGGTGCAAAATGGCTGGCAGAGAACACTGACATCAAACTTGTAGgtaagatatagatgactttttaagatatgggttgcttcttccctcccaaaagcatttcctctgtc-tcttgttcgactcatgactggttccttatatcttg

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|86077251|gb|DR373008.1|DR373008
EST:     GGTCGATGGGGCGAAATGGTTGGTTGAAAATACAGACATCAAACTTGTTG                         GGCTTGATTATCTTTCATTTGCTGCTTATGATGAAGCACCTGCGACGCATA
genomic: GGTCGATGGGGCGAAATGGTTGGTTGAAAATACAGACATCAAACTTGTTGgtaagagatg ... tttcatctagGGCTTGATTATCTTTCATTTGCTGCTTATGATGAAGCACCTGCGACGCATA