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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAAATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctcatcccttgtagtgcgtttgctataaagagtctcaacttttagatgaaactaccatatttggatttatgattgatgaatgagtgcttgtgtgcag

Basic information

species Zea mays
transcript GRMZM2G161566_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G161566_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g51410.2 (Oryza sativa), 5'ss of exon 3
AGAAAATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctcatcccttgtagtgcgtttgctataaagagtctcaacttttagatgaaactaccatatttggatttatgattgatgaatgagtgcttgtgtgcag
|||||||||||||||||||| ||||| || || ||  ||||||||||| |||| |||||||||| |  | |   | | |      |    ||      ||    |  ||  |   |    || || |||| || ||||| ||| |   | ||| |||||
AGAAAATCAGAAGAAGTTCTCTTCTATTTGAATGGACGGTGTATTTACCTAGTTGgttagttctgaaacttctcattcctccaaattatcagcactgaaaaagatcaatatatagatggcatctgaatttctggttgataaattaaaacatgtctgcag
















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|89251386|gb|DY623172.1|DY623172
EST:     ATCAGAAAAAGTTCTGTTCTACTTAAACGGGAGGGGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGGGGGGAAGATCATGTCTGAAATCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|71320315|gb|DR796905.1|DR796905
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211098206|gb|FL312089.1|FL312089
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|148935612|gb|EC879655.2|EC879655
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|74244986|gb|DT652900.1|DT652900
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211424454|gb|FL316412.1|FL316412
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211307748|gb|FL198215.1|FL198215
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|30087806|gb|CB886012.1|CB886012
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|148962769|gb|EE013680.2|EE013680
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211306681|gb|FL364492.1|FL364492
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTYTANTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211494300|gb|FL310097.1|FL310097
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211213913|gb|FL360058.1|FL360058
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211537841|gb|FL338654.1|FL338654
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211274785|gb|FL366576.1|FL366576
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|101387955|gb|EB815991.1|EB815991
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGGAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|31664615|gb|CD573548.1|CD573548
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|78078108|gb|DV506523.1|DV506523
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211151343|gb|FL367847.1|FL367847
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211101919|gb|FL367365.1|FL367365
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|71447774|gb|DR828824.1|DR828824
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211265503|gb|FL351831.1|FL351831
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|91048521|gb|EB158939.1|EB158939
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|78116794|gb|DV535181.1|DV535181
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211168848|gb|FL341411.1|FL341411
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211491457|gb|FL310570.1|FL310570
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|88757481|gb|DY541622.1|DY541622
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211104289|gb|FL362968.1|FL362968
EST:     ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTT--T-AGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|211477893|gb|FL342552.1|FL342552
EST:     ATCAGAAGAAKTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
EST: gi|213191774|gb|FM182092.1|FM182092
EST:     NNNNGAAGAAG-TCTG-TCTACTTAAACGGGAGGTGTATTTACTTAGTGG                         GAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT
genomic: ATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctc ... ttgtgtgcagGAATGATGGGTTCTGGAAAAAGTACTGTGGGGAAGATCATGTCTGAAGTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAAATCAGAAGAAGTTCTGTTCTACTTAAACGGGAGGTGTATTTACTTAGTGGgttagttctcatcccttgtagtgcgtttgctataaagagtctcaacttttagatgaaactaccatatttggatttatgattgatgaatgagtgcttgtgtgcag

- - - - - AAGAAG
- - - - -  AGAAGT