Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCATCGCTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccgccgacactgttctacgcccactccactcagccactgcactgcagctagcgtgacttggtggtgcgtgcatgcatgatttctcgcctcgcg...

Basic information

species Zea mays
transcript GRMZM2G116185_T07
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G116185_T07 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g50900.1 (Oryza sativa), 5'ss of exon 6
ACCATCGCTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccc--cgccgacactgttctac-gcccactccactcagcc-actgcactgcagctagcgtgacttggtggtgcgtgcatgcatgatttctcgcctcgcg
||||| |||||||||||||||||||||||||| || ||| | ||||||||||||||||||| |||     |  | ||||||| | | || || ||| ||  | ||||   ||||||    |  |     |  |   |   | || |  || |   |     
ACCATTGCTCTGATCGCCGTCAGAGAAGGCGTTGTACAGTTAGGCTCCATGAAGAAGgtacgcccgttctctgctctgttcttcagtcctcttcacccactctactgtg-tgcagcagttgccagggtttactctatcggttcaggggtttttatcgg---
















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|71441211|gb|DR822261.1|DR822261
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|50330624|gb|CO525750.1|CO525750
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|93015353|gb|EB640873.1|EB640873
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|88754599|gb|DY538740.1|DY538740
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCACGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|76291868|gb|DV031436.1|DV031436
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|93016819|gb|EB642339.1|EB642339
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|78092357|gb|DV520731.1|DV520731
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|71299044|gb|DR785510.1|DR785510
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|94474694|gb|EB703652.1|EB703652
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|86473098|gb|DY239468.1|DY239468
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|101393157|gb|EB818509.1|EB818509
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|78084496|gb|DV512889.1|DV512889
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|74244543|gb|DT652457.1|DT652457
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|76011281|gb|DT938451.1|DT938451
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|149058752|gb|EE156770.2|EE156770
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|50336433|gb|CO531559.1|CO531559
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|88751941|gb|DY536082.1|DY536082
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|76910706|gb|DV163993.1|DV163993
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|71316516|gb|DR794932.1|DR794932
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|89251137|gb|DY622923.1|DY622923
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|74244764|gb|DT652678.1|DT652678
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|148933880|gb|EC877854.2|EC877854
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|71442161|gb|DR823211.1|DR823211
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|71323162|gb|DR798249.1|DR798249
EST:     CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: CTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
EST: gi|9732759|gb|BE511511.1|BE511511
EST:     AGGCGTCGTGCAGCTTGGCTCCATGAAGAAG                         GTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC
genomic: AGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccg ... gcgcgcgcagGTGGCGGAGGACCTGAGCTACGTGGTGATGCTGCGCCGGAAGTTCGGCTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCATCGCTCTGATCGCCGTCAGAGAAGGCGTCGTGCAGCTTGGCTCCATGAAGAAGgtacaccccgccgacactgttctacgcccactccactcagccactgcactgcagctagcgtgacttggtggtgcgtgcatgcatgatttctcgcctcgcg

- - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG