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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCATCTCACCAAATTCCCCAGCCTTCCGCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggccttgggcctcatggttttttattagttgatgccatagcgaccccctaagtgctctagtatatgcaaaattgggttcttgattattcgtat...

Basic information

species Zea mays
transcript GRMZM2G073077_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073077_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g25420.2 (Oryza sativa), 5'ss of exon 2
GTCCATCTCACCAAATTCCCCAGCCTTCCGCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggccttgggcctcatggttttttattagttgatgccatagcgaccccctaagtgctctagtatatgcaaaat-tgggttcttgattattcgtat-
||||  |||||||| |||||||||||||| || |||||| |||||||||| || || ||||| ||||| ||| |||| ||||||||    ||||   |  || |||| ||||| ||  ||||  |      |   |  || |  | |  ||  |   | |   |  ||  ||| || |   
GTCCGCCTCACCAAGTTCCCCAGCCTTCCTCCATCATTTCAGCAGACACCGAATGCAGTGGAAGAGCTGAAAATTGCGAgtaagattaa-ttggatgtt-tgcttttatattaatttctgcctaaaatgtgctacacttgttacatttgattgattctgtacatggttagttactcttgaa
















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|211149119|gb|FL417450.1|FL417450
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211466169|gb|FL380588.1|FL380588
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211180868|gb|FL091536.1|FL091536
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|56382240|gb|CV984909.1|CV984909
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|76013187|gb|DT940357.1|DT940357
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|50327367|gb|CO522493.1|CO522493
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211221445|gb|FL389599.1|FL389599
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|5555446|gb|AI881397.1|AI881397
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211521193|gb|FL395748.1|FL395748
EST:     GCCCTCATTTGAGCAGACACCTAACGCCGTCGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211045344|gb|FL397284.1|FL397284
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211123288|gb|FL412657.1|FL412657
EST:     GCCCTCATTTGAGCAGACACCTAACGCCGTCGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211403085|gb|FL391554.1|FL391554
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|23357704|gb|BU645353.1|BU645353
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211368876|gb|FL402356.1|FL402356
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211290626|gb|FL412730.1|FL412730
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|21987255|gb|BQ778783.1|BQ778783
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|71428537|gb|DR809587.1|DR809587
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|9255128|gb|BE345596.1|BE345596
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211160049|gb|FL415236.1|FL415236
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|32910449|gb|CF015261.1|CF015261
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211311554|gb|FL415801.1|FL415801
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|32910399|gb|CF015211.1|CF015211
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGGGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211257382|gb|FL426637.1|FL426637
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211204476|gb|FL397886.1|FL397886
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211202662|gb|FL427928.1|FL427928
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211244803|gb|FL372839.1|FL372839
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211343978|gb|FL410639.1|FL410639
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211488047|gb|FL401996.1|FL401996
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|19057828|gb|BM736495.1|BM736495
EST:     CCTCATTTGAGCAGACACCTAAAGGCCGGGGAGGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: CCTCATTTGAGCAGACACCTAAA-GCCGTGGA-GGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211071747|gb|FL413442.1|FL413442
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211259601|gb|FL417871.1|FL417871
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|74240003|gb|DT647917.1|DT647917
EST:     CAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: CAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211196531|gb|FL380888.1|FL380888
EST:     GCCCTCATTTGAGCAGACACCTAACGCCGTCGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|56382239|gb|CV984908.1|CV984908
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211238673|gb|FL405238.1|FL405238
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211144477|gb|FL393223.1|FL393223
EST:     TAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: TAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|120480690|gb|EH210959.1|EH210959
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211207035|gb|FL397427.1|FL397427
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211273315|gb|FL388187.1|FL388187
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|71331372|gb|DR802521.1|DR802521
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|148947219|gb|EC892573.2|EC892573
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT
EST: gi|211119379|gb|FL414341.1|FL414341
EST:     GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAA                         GGGACATTTATGAGCATGCTGTTGTT
genomic: GCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggc ... aacatttcagGGGACATTTATGAGCATGCTGTTGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCCATCTCACCAAATTCCCCAGCCTTCCGCCCTCATTTGAGCAGACACCTAAAGCCGTGGAGGAGCTCAAACTTGCAAgtaagatggccttgggcctcatggttttttattagttgatgccatagcgaccccctaagtgctctagtatatgcaaaattgggttcttgattattcgtat

- - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA