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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTTGAGCAGACTGATGGATTAGTTTGGGTTGTTGATAGTTCAGACATAAGGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctataccagttctacaagtgatgatgatgaactggatgctgttgtattaaaaacattttggtccttccatgccatgggatgatgggaatatgact...

Basic information

species Zea mays
transcript GRMZM2G154890_T03
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G154890_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g22140.1 (Oryza sativa), 5'ss of exon 4
CTTTGAGCAGACTGATGGATTAGTTTGGGTTGTTGATAGTTCAGACATAAGGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctataccagttctacaagtgatgatgatgaactggatgctgttgtattaaaaacattttggtccttccatgccatgggatgatgggaatatgact-
||||||||| ||||||||| |||||||||| ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||   | | | ||  |  ||| |||        || |   | ||    |  |   | |   ||| |    | | |   |    | ||  | | |  |   
CTTTGAGCAAACTGATGGACTAGTTTGGGTGGTTGATAGTTCAGACATTAGGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtactattt-ctaggccaccaaatgacaggatctaattatgtccttcattgattgcagctgattgttgtcgcaaggatgttttctaataagtacagaaaac

upper sequence: GRMZM2G154890_T03 (Zea mays), 5'ss of exon 4
lower sequence: AT2G18390.1 (Arabidopsis thaliana), 5'ss of exon 3
CTTTGAGCAGACTGATGGATTAGTTTGGGTTGTTGATAGTTCAGACATAAGGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgct-ataccagttctacaagtgatgatgatgaactggatgctgttgtattaaaaacattttggtccttccatgccatgg-gatgatgggaatatgact-----------------
|||||||||||||||||| || |||||||| ||||||||||| ||  | |||||| | |||||||||      |||||  ||||||||||||||||||||||||  | |||  |||   |  |   ||     | ||    | ||| |||||     ||   || |||   |   |    ||  ||||||    ||   | |                 
CTTTGAGCAGACTGATGGTTTGGTTTGGGTGGTTGATAGTTCTGATCTTAGGAGGTTAGATGATTGCAAGATGGAACTTGACAATCTCTTGAAAGAAGAGgtatattcataaaagtatcaatatctat-----tcaatcaaaagcttttgtaagctgaa-gcttgggttgctgtttttggtgaagatgattcatattcaaatcttggttttaatggcag
















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|91874746|gb|EB404703.1|EB404703
EST:     GGAAGCTTGATGATTGCCGTGCTGAACTCCCCA-TCTCTTGAAAGAAGAG                         AGACAAGTTGGAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAG
EST: gi|78112616|gb|DV531010.1|DV531010
EST:     GAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTTGAA-GAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGGTTTTTGCAAATAAGCAAGACATACA
genomic: GAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTT-GAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGG-TTTTTGCAAATAAGCAAGACATACA
EST: gi|60358498|gb|DN225471.1|DN225471
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|5919346|gb|AW054443.1|AW054443
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCCCAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|60345034|gb|DN212007.1|DN212007
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|76016498|gb|DT943668.1|DT943668
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|78114767|gb|DV533155.1|DV533155
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|5932640|gb|AW057001.1|AW057001
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|78082478|gb|DV510890.1|DV510890
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|91874745|gb|EB404702.1|EB404702
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCCCAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|60337602|gb|DN204575.1|DN204575
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|60345576|gb|DN212549.1|DN212549
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|78114766|gb|DV533154.1|DV533154
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCCCAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|50335743|gb|CO530869.1|CO530869
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAA
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAA
EST: gi|211291158|gb|FL439700.1|FL439700
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|60336929|gb|DN203902.1|DN203902
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|76016499|gb|DT943669.1|DT943669
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTTGT-GGTTTTTGCAAATAAAGCA-GACATAC
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATT-GTTGGTTTTTGCAAATAA-GCAAGACATAC
EST: gi|19351517|gb|BM896049.1|BM896049
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|86469538|gb|DY235908.1|DY235908
EST:     AGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTATTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACAT
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACAT
EST: gi|60339777|gb|DN206750.1|DN206750
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|211435009|gb|FL439413.1|FL439413
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|71318962|gb|DR796230.1|DR796230
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|211350430|gb|FL481328.1|FL481328
EST:     GGAGGCTTGATGATTSCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|5770292|gb|AI973466.1|AI973466
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|78112615|gb|DV531009.1|DV531009
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|32945513|gb|CF050332.1|CF050332
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAGGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|50339680|gb|CO534806.1|CO534806
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATCCAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
EST: gi|74239326|gb|DT647240.1|DT647240
EST:     GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAG                         AGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG
genomic: GGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctata ... attttaacagAGACTAGTTGGAGCTTCATTGTTGGTTTTTGCAAATAAGCAAGACATACAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTTGAGCAGACTGATGGATTAGTTTGGGTTGTTGATAGTTCAGACATAAGGAGGCTTGATGATTGCCGTGCTGAACTCCACAATCTCTTGAAAGAAGAGgtatgctataccagttctacaagtgatgatgatgaactggatgctgttgtattaaaaacattttggtccttccatgccatgggatgatgggaatatgact

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG