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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGGATTATAGCATGTGTGCTGACACGAATCGAGGGGCTGCTATCCGAGATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTATTCAACAGGAGgttcactgctacattctaatatttcttcaagatcatgatgactatttttatcaaattgcttgttcctatgactaggatttcttttcctcttgtttcctta...

Basic information

species Zea mays
transcript GRMZM2G098815_T03
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G098815_T03 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os12g09610.1 (Oryza sativa), 5'ss of exon 7
ATGGGATTATAGCATGTGTGCTGACACGAATCGAGGGGCTGCTATCCGAGATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTATTCAACAGGAGgttcactgctacattctaatatttcttcaagat-catgatgactattt-ttatcaaattgcttgttcctatgactaggatttcttttcctcttgtttcctta
||||||||||||||||||||||||||| | |||||| |||||||| ||||||||||||||||||||||||||||||||||||||||||   ||||| ||||||| ||||||||||||  ||||| | | || |   |     ||||   | |  ||    | ||    ||| |  |  |||  ||    | |||| |  |  
ATGGGATTATAGCATGTGTGCTGACACAAGTCGAGGTGCTGCTATTCGAGATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTTCCCAACAAGAGgttctctgctacattcttgtatttatgctagctatcttgcatctatggatcactaataaacatgaatgtataagcactattaattggtgttttgtctttt--
















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|60342225|gb|DN209198.1|DN209198
EST:     ATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTATTCAACAGGAG                         CAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
genomic: ATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTATTCAACAGGAGgttcactgct ... tttcttgcagCAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
EST: gi|149005335|gb|EE039886.2|EE039886
EST:     ATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTATTCAACAGGAG                         CAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
genomic: ATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTATTCAACAGGAGgttcactgct ... tttcttgcagCAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
EST: gi|71433708|gb|DR814758.1|DR814758
EST:     AAGGTCCACTTGCACCTATCCAACAGGAG                         CAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
genomic: AAGGTCCACTTGCACCTATTCAACAGGAGgttcactgct ... tttcttgcagCAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
EST: gi|71759264|gb|DR957201.1|DR957201
EST:     AAGGTCCACTTGCACCTATTCAACAGGAG                         CAAGTCGTAGTAGAACTGGCAAAAGATCCTAAACTGGTTTATTATTGTGGG
genomic: AAGGTCCACTTGCACCTATTCAACAGGAGgttcactgct ... tttcttgcagCAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
EST: gi|76014272|gb|DT941442.1|DT941442
EST:     CTTAAAAGGTCCACTTGCACCTATTCAACAGGAG                         CAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
genomic: CTTAAAAGGTCCACTTGCACCTATTCAACAGGAGgttcactgct ... tttcttgcagCAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
EST: gi|110944532|gb|EE164689.1|EE164689
EST:     ATTTGATTGCAAGAGCCTTAAAGGGTCCACTTGCACCTATTCAACAGGAG                         CAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
genomic: ATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTATTCAACAGGAGgttcactgct ... tttcttgcagCAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
EST: gi|78117670|gb|DV536057.1|DV536057
EST:     ATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTATTCAACAGGAG                         CAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG
genomic: ATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTATTCAACAGGAGgttcactgct ... tttcttgcagCAAGTCGTAGTAGAACTGGCAAAGGATCCTAAACTGGTTTATTATTGTGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGGGATTATAGCATGTGTGCTGACACGAATCGAGGGGCTGCTATCCGAGATTTGATTGCAAGAGCCTTAAAAGGTCCACTTGCACCTATTCAACAGGAGgttcactgctacattctaatatttcttcaagatcatgatgactatttttatcaaattgcttgttcctatgactaggatttcttttcctcttgtttcctta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA