Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAAGTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggtagttcgtatttaggccgaaattcttaaatagctcaagcaaaagaaattcttagatttcacctaccaattttttgctttcgtttttttgctaattatatatattttttgaacag

Basic information

species Zea mays
transcript GRMZM5G816356_T02
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G816356_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os01g47690.1 (Oryza sativa), 5'ss of exon 7
GTAAGTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggtagttcgtatttaggccgaaattcttaaatagctcaagcaaaagaaattcttagatttcacctaccaattttttgctttcgtttttttgctaattatatatattttttgaacag
|||||||||||||||||||||| ||| |||||||||||||| ||||| |||||||||  || || || |    ||   |   |  |  |  || ||  |  |||||  ||  ||   ||||   ||  |||||  |  ||  |||| |                            
GTAAGTACTGTTGAAGAGGAGGTTGCGTATAATGCTCGACTAACAAAGGATAAGgtacatgctactttgg--ctaattctttacacccatctaact--aataaaagctatattt---tttctgatattaatttacttgttatgtttatag--------------------------
















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|32827854|gb|CD967532.1|CD967532
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACGAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|50331454|gb|CO526580.1|CO526580
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|28982565|gb|BQ538185.2|BQ538185
EST:     GTACTGTTGAAAAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|87155453|gb|DY400242.1|DY400242
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACGAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|211380540|gb|FL436905.1|FL436905
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|37383453|gb|CF628743.1|CF628743
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACGAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|111990479|gb|EE331905.1|EE331905
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACGAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|78180745|gb|DV551118.1|DV551118
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACGAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|93283010|gb|EB675274.1|EB675274
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|78106797|gb|DV525215.1|DV525215
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|6918329|gb|AW399859.1|AW399859
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACGAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|71446301|gb|DR827351.1|DR827351
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|78077487|gb|DV505921.1|DV505921
EST:     GTACTGTTGAAGAGGAGGCGGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|16917690|gb|BM073404.1|BM073404
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|108953804|gb|EC364896.1|EC364896
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|76911210|gb|DV164200.1|DV164200
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|60339336|gb|DN206309.1|DN206309
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|108953251|gb|EC364657.1|EC364657
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACGAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|9953495|gb|BE640078.1|BE640078
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|91048595|gb|EB159013.1|EB159013
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|149098018|gb|EE183965.2|EE183965
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|148944080|gb|EC889165.2|EC889165
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA
EST: gi|6918576|gb|AW400106.1|AW400106
EST:     GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACGAAAGATAAG                         GAAACTTTCAAGACGATCATGAATA
genomic: GTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggta ... ttttgaacagGAAACTTTCAAGACGATCATGAATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTAAGTACTGTTGAAGAGGAGGCTGCCTATAATGCTCGACTCACAAAAGATAAGgtaattggtagttcgtatttaggccgaaattcttaaatagctcaagcaaaagaaattcttagatttcacctaccaattttttgctttcgtttttttgctaattatatatattttttgaacag

- - - - - TTGAAG
- - - - -  TGAAGA
- - - - - -  AAGAGG
- - - - - - - AGAGGA
- - - - - - -  GAGGAG