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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAAAGAAGTTACTCACGCTCCCCATCTCCACGCCGTGGAAGAGGTCGCAGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgttttttccttgagcagttggctatttttttccttgagcagttgagctcgttttgatatttcctttttattatcctcag

Basic information

species Zea mays
transcript GRMZM2G099317_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G099317_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os05g02880.1 (Oryza sativa), 5'ss of exon 6
--GTGAAAGAAGTTACTCACGCTCCCCATCTCCACGCCGTGGAAGAGGTCGCAGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgttttttccttgagc---agttggctatttttttccttgagcagttgagctcgttttgatatttcctttttattatcctcag--------------
  |||| |||||||| ||| |||| ||||| |||||||||||| | ||||||||||  ||||||||| ||||| ||||||||||||| ||    || |||   |   | |     |  |  |     | |   | ||  | |   |  |            ||| || |     |    |  |    | |               
GCGTGAGAGAAGTTATTCATGCTCTCCATCGCCACGCCGTGGACGTGGTCGCAGTCGGAGCTATAGCCGGAGCCGGAGCCGGAGCCGCAGTTACAGgtatgcttcaaacgccacatgttcaaattataatacaccatgctgtctgtccaaatcacagatatgttatgttgacctcaccctgcttcttttacattctttatatcag
















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|87155664|gb|DY400453.1|DY400453
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGTCGTAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|71771420|gb|DR969357.1|DR969357
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCCGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|71298910|gb|DR785450.1|DR785450
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|71310802|gb|DR791706.1|DR791706
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|50336824|gb|CO531950.1|CO531950
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGT
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGT
EST: gi|76280523|gb|DV020091.1|DV020091
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|60343292|gb|DN210265.1|DN210265
EST:     CAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: CAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|148941832|gb|EC886805.2|EC886805
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGGCCGTGGAC-GT
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCG-CCGTG-ACCGT
EST: gi|71438958|gb|DR820008.1|DR820008
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|71298912|gb|DR785451.1|DR785451
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|148934490|gb|EC878531.2|EC878531
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|71771421|gb|DR969358.1|DR969358
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|60351707|gb|DN218680.1|DN218680
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|211248809|gb|FL007474.1|FL007474
EST:     AGTCCAAGCTATAGCAGGAGCATGAGTCGTAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCGCTATCTGGATCTCCTAGGGGGAGGCCGCCGTGACCGTG
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGG-AGGCCGCCGTGACCGTG
EST: gi|76282712|gb|DV022280.1|DV022280
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|74232122|gb|DT640036.1|DT640036
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|31406033|gb|CD484765.1|CD484765
EST:     GGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: GGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|87153453|gb|DY398242.1|DY398242
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAG
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAG
EST: gi|149070621|gb|EE159032.2|EE159032
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|76014888|gb|DT942058.1|DT942058
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|50333687|gb|CO528813.1|CO528813
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|76289551|gb|DV029119.1|DV029119
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|211251031|gb|FL007480.1|FL007480
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGGACCGTG
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTG-ACCGTG
EST: gi|211004444|gb|FL448785.1|FL448785
EST:     CCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: CCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|23357517|gb|BU645166.1|BU645166
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGTCGTAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCT
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCT
EST: gi|148934137|gb|EC878155.2|EC878155
EST:     AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGGATCTCCTAGGGGAGGCCGCCGTGACCGTGA
EST: gi|148959184|gb|EE010639.2|EE010639
EST:     AGTCCAAGCTATACCAGGAGCAGGAGCCGGAGCCGGACCCGGAGCTATAG                         CCGATCGAGGTCCCTATCTGGGATCTCCTAGGGGA
genomic: AGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgtt ... ttatcctcagCCGATCGAGGTCCCTATCTGG-ATCTCCTAGGGGA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGAAAGAAGTTACTCACGCTCCCCATCTCCACGCCGTGGAAGAGGTCGCAGTCCAAGCTATAGCAGGAGCAGGAGCCGGAGCCGGAGCCGGAGCTATAGgtatgatgttttttccttgagcagttggctatttttttccttgagcagttgagctcgttttgatatttcctttttattatcctcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT