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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaatgtctactttaatgtgagattatctgctctaccattgctgttggtacctattactggattttttttttcctgagcaaagtcggttaaacttgtgattctttgtatcgttcag

Basic information

species Zea mays
transcript GRMZM5G848768_T02
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G848768_T02 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os02g57260.1 (Oryza sativa), 5'ss of exon 12
---------------------------------------CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaatgtctactttaatgtgagattatctgctctaccattgctgttggtacctattactggattttttttttcctgagcaaagtcggttaaacttgtgattctt-tgtatcgttcag----------------------------
                                        | || |||||||| || ||||||||||| || ||||| ||||| ||||| |||||||||||||||  |||    ||||  ||| |||||  ||   |||  | ||    |  | |  | | | ||||  |    || |        |||   |   ||   | || |     | || |  |                             
TCGCAGTTCGTGTATTGCTGCAACAAGCTGGGACTGGACAGGTCAAAAGTAAACGTGAATGGAGGCGCAATCGCCCTAGGACATCCTCTTGGTGCAACAGgtaatcaaat----acttgtatgggagatcgtc-attctggctttagaatgtgcaggtgtcaatggaagtagcattgctgtctgttagtacctgctacagatcatccaagcatgtcttctaaatggggtgattgttcctctgttggtcag
















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|71769910|gb|DR967847.1|DR967847
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|18650311|gb|BM499130.1|BM499130
EST:     ATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG                         GTGCCCGGTGTGTGGCTACTCTTCTAAATGAAATGAAGCGCCGGGGCAGAG
genomic: ATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagGTGCCCGGTGTGTGGCTACTCTTCTAAATGAAATGAAGCGCCGGGGCAGAG
EST: gi|60346439|gb|DN213412.1|DN213412
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|32868231|gb|CF007913.1|CF007913
EST:     CGGTCTAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|7031294|gb|AW461032.1|AW461032
EST:     CGTTCTAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|149076676|gb|EE165319.2|EE165319
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|91874450|gb|EB404407.1|EB404407
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|211361818|gb|FL432329.1|FL432329
EST:     CGTTCTAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|211292683|gb|FL176851.1|FL176851
EST:     CGTTCTAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|111195424|gb|EE293559.1|EE293559
EST:     GGGTGCAACAG                         GTGCCCGGTGTGTGGCTACTCTTCTAAATGAAATGAAGCGCCGGGGCAGAG
genomic: GGGTGCAACAGgtaatggaat ... tatcgttcagGTGCCCGGTGTGTGGCTACTCTTCTAAATGAAATGAAGCGCCGGGGCAGAG
EST: gi|74238395|gb|DT646309.1|DT646309
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|33942354|gb|CF348954.1|CF348954
EST:     CGTTCTAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|148946680|gb|EC891943.2|EC891943
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|149100616|gb|EE186704.2|EE186704
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|32859198|gb|CD998879.1|CD998879
EST:     CGTTCTAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|78074202|gb|DV502636.1|DV502636
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|88752432|gb|DY536573.1|DY536573
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|149101630|gb|EE187762.2|EE187762
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|101388206|gb|EB816117.1|EB816117
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|60345789|gb|DN212762.1|DN212762
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG
EST: gi|101394624|gb|EB819247.1|EB819247
EST:     CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAG        
genomic: AATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaat ... tatcgttcagG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTTCCAAAGTAAATGTAAATGGAGGCGCGATTGCCCTTGGACACCCTCTGGGTGCAACAGgtaatggaatgtctactttaatgtgagattatctgctctaccattgctgttggtacctattactggattttttttttcctgagcaaagtcggttaaacttgtgattctttgtatcgttcag

- - - - - - - - - - TGGAGG