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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgtttggagtccttaaccagtgataaaatatgttaaatatgcatgccttttttgagctgctgcttattgacaatttctggtggatctttttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG

Basic information

species Zea mays
transcript GRMZM2G014069_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G014069_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g44530.1 (Oryza sativa), 3'ss of exon 2
tgtgtttggagtccttaaccagtgataaaatatgttaaatatgcatgcctttt---ttgagct-gctgcttattga-caatttctggtggatctttt--tgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
       | |||| || ||||||||||||| ||| | |||||   |   || |   ||  | |  ||  ||  ||| || ||||||  ||   || |  | |||||||||||||| |||||||| ||||| || || ||||| ||||||||||||
-------gtagtcatttaccagtgataaaacatggtgaatatatgtcagttctgaattacgttcactttttgctgagcattttctgacgggctttctgttcatgcagCCTGGTCATTTTCAGGGTAATTCTTATGACATAGTATCTGCTTTCCAG
















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|148991389|gb|EE032884.2|EE032884
EST:     TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAG                         CCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
genomic: TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAGgtaatgctcc ... tttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
EST: gi|74234929|gb|DT642843.1|DT642843
EST:     TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAG                         CCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
genomic: TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAGgtaatgctcc ... tttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
EST: gi|211402498|gb|FL360101.1|FL360101
EST:     GGACGGCTTAATCCGAC-TAGTATCATGATATATTGTGGGAACTATTA-G                         CCTGGTCACTTTCAGGGCAATTCCTA
genomic: GGACGGCTTAATC-GACCTAGTATCATGATATATGGTGG-AACTATTAAGgtaatgctcc ... tttgatgcagCCTGGTCACTTTCAGGGCAATTCCTA
EST: gi|211106145|gb|FL352585.1|FL352585
EST:     GGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGGACTATTTAAG                         CCTGGTCACTTTCAGGCCAATTCCTACGAATATAGTTT
genomic: GGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATT-AAGgtaatgctcc ... tttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGA-TATAGTTT
EST: gi|149112950|gb|EE295739.2|EE295739
EST:     TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAG                         CCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTTCAGTGC
genomic: TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAGgtaatgctcc ... tttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAGTGC
EST: gi|78088301|gb|DV516694.1|DV516694
EST:     TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAG                         CCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
genomic: TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAGgtaatgctcc ... tttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
EST: gi|149110704|gb|EE190563.2|EE190563
EST:     TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAG                         CCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
genomic: TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAGgtaatgctcc ... tttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
EST: gi|28568894|gb|CB280769.1|CB280769
EST:     TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAG                         CCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
genomic: TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAGgtaatgctcc ... tttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
EST: gi|88757602|gb|DY541743.1|DY541743
EST:     TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATAAAG                         CCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTT
genomic: TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAGgtaatgctcc ... tttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTT
EST: gi|71311153|gb|DR791883.1|DR791883
EST:     TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAG                         CCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCTAG
genomic: TGGGACGGCTTAATCGACCTAGTATCATGATATATGGTGGAACTATTAAGgtaatgctcc ... tttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgccttttttgagctgctgcttattgacaatttctggtggatctttttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG
                                         tcttttt  CT-rich tract
                                        atcttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtgtttggagtccttaaccagtgataaaatatgttaaatatgcatgccttttttgagctgctgcttattgacaatttctggtggatctttttgatgcagCCTGGTCACTTTCAGGGCAATTCCTACGATATAGTTTCTGCTTTCCAG

tgtgttt
- - - - - - - - - - - - - - - - - - - atatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctggtgg