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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACAATTTGAGTTGGCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatataatctgtattcggtaggtggtgttcctcaatgatgccctgctggatacactcttgtttttaatgaaacagttgaaagtacactggttgtaggagttacctatgtttcaattcacttgttatgttttataactatttcttgatctctctgtctgtttttctctttggcag

Basic information

species Zea mays
transcript GRMZM2G095969_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095969_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os07g06410.5 (Oryza sativa), 5'ss of exon 6
AACAATTTGAGTTGGCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatataatctgtattcggtaggtggtgttcctcaatgatgccctgctggatacactcttgtttttaatgaaacagttgaaagtacactggttgtaggagttacctatgtttcaattcacttgttatgttttataactatttcttgatctctctgtctgtttttctctttggcag
| |||||||| ||||||||||||||||||||||| ||||||||||||||| | ||||||||||||||||||||||| ||  |  ||   ||| |||| |||||      ||||||||| |           | ||  |||||  | |      | | | |  | ||   || ||  ||     | |   ||||     || | |    |||  | |                                                              
AGCAATTTGAATTGGCTGAAGCAGTAAAACTGCCAATGTTTCTTCACATGAGGGCTGCTGGTGAAGACTTCTGTGAGATTGTATCAGAAAATCTGCATAGgtaatgctcaatctgtatacca--------ataccataatgac-cacaaagacaaataatgatattggcaaggagcca-----aggactactg-----agtactgctttatactcctcc-----------------------------------------------------------

upper sequence: GRMZM2G095969_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os07g06440.1 (Oryza sativa), 5'ss of exon 8
AACAATTTGAGTTGGCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatataatctgtat-tcggtag-gtggtgttcctcaatgatgccctgctg-gatacact-cttgtttttaatgaaacagttgaaagtacactggttgtaggagttacctatgtttcaattcacttgttatgttttataactatttcttgatctctctgtctgtttttctctttggcag
| |||||||| |||||||||||||||||| |||| ||||||||||||||||| ||||||||||||||||||||||| ||  || ||   ||| || | |||||  |   |||||||||  |  ||   |   |      |   | |  || ||| |    ||| |||  |  |  |  |    |  | |  |      ||                                                                                  
AGCAATTTGAATTGGCTGAAGCAGTAAAATTGCCAATGTTTCTTCACATGCGGGCTGCTGGTGAAGACTTCTGTGAGATTGTGTCAGAAAATCTGTATAGgtaatactcaatctgtataccaatactatataggcaaggagccaaggactactgaggagtactgctttgtactcctccagtgttctagatcagcacaatt----------------------------------------------------------------------------------
















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|60340099|gb|DN207072.1|DN207072
EST:     ATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: ATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|101392457|gb|EB818158.1|EB818158
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|88757501|gb|DY541642.1|DY541642
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|76936926|gb|DV174965.1|DV174965
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|78179334|gb|DV549707.1|DV549707
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|149089637|gb|EE178891.2|EE178891
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|76021691|gb|DT948861.1|DT948861
EST:     CGTGCGGCTGGTGAAGACTTCTGGGAAATCATGACACGGAATTGGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|7009462|gb|AW455727.1|AW455727
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|94477631|gb|EB706589.1|EB706589
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|71774366|gb|DR972244.1|DR972244
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|76021692|gb|DT948862.1|DT948862
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|74242558|gb|DT650472.1|DT650472
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|71434563|gb|DR815613.1|DR815613
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACA
EST: gi|211484453|gb|FL145754.1|FL145754
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|89251475|gb|DY623261.1|DY623261
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|60341449|gb|DN208422.1|DN208422
EST:     ATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: ATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|78108903|gb|DV527320.1|DV527320
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|78074889|gb|DV503323.1|DV503323
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|71325561|gb|DR799471.1|DR799471
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|87157799|gb|DY402588.1|DY402588
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAAAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
EST: gi|13382254|gb|BG458929.1|BG458929
EST:     CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAG                         ATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA
genomic: CGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatata ... tctttggcagATTCCCTGGTGGGGTTACACATTCCTTCACTGACTCAGCAGAAGATCGGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACAATTTGAGTTGGCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACGGAATTTGCACAGgtagcatataatctgtattcggtaggtggtgttcctcaatgatgccctgctggatacactcttgtttttaatgaaacagttgaaagtacactggttgtaggagttacctatgtttcaattcacttgttatgttttataactatttcttgatctctctgtctgtttttctctttggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA