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'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgactgacgaaatgacaaggctggcaggcgcgggcacagggcatcggtgggagagctttggttgggattaagactgaacttggttacttgtgctggtgtgaaatgcagGTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTACAGTGGGTTGCGTGCCAAAGGCGAGAAGCCTGACTTGGCACTGGTCGCCT

Basic information

species Zea mays
transcript GRMZM2G044237_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044237_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g17120.2 (Oryza sativa), 3'ss of exon 1
gtgactgacgaaatgacaaggctggcaggcgcgggcacagggcatcggtgggagagctttggttgggattaagactgaacttggttacttgtgctggtgtgaaatgcagGTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTACAGTGGGTTGCGTGCCAAAGGCGAGAAGCCTGACTTGGCACTGGTCGCCT
|||  | ||    |  |   |  | |  ||| ||||   ||||   ||         |||   |  | | ||    |    ||||| ||  | | |||| |   | |||||||||||||||||||| || |||||||||||||||||||||||||||||| | ||  |||| ||||| ||||||||||| ||| | || ||||||||||
gtgggtaactggtttccggtgaagcc--gcgggggcgttgggctgtgggtttttttttttcagtatgctgaatctggtggctggttgctgat-cgggtgcgggtt-cagGTGGAAGGCGGCGTCACGGCGGCGAAGGGGTTCAAGGCGGCGGGTATCTACGGCGGTCTGCGCGCCAAGGGCGAGAAGCCCGACCTTGCGCTGGTCGCCT
















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|211328123|gb|FL062397.1|FL062397
EST:     GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGAGGGCCCTTGGAMACAG                         GTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
genomic: GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGATGGCCCTTGGAAACAGgtgactgacg ... tgaaatgcagGTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
EST: gi|89755796|gb|DY686083.1|DY686083
EST:     GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGATGGCCCTTGGAAACAG                         GTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
genomic: GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGATGGCCCTTGGAAACAGgtgactgacg ... tgaaatgcagGTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
EST: gi|211328125|gb|FL062399.1|FL062399
EST:     GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGAGGGCCCTTGGAAACAG                         GTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
genomic: GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGATGGCCCTTGGAAACAGgtgactgacg ... tgaaatgcagGTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
EST: gi|149000193|gb|EE037335.2|EE037335
EST:     GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGATGGCCCTTGGAAACAG                         GTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
genomic: GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGATGGCCCTTGGAAACAGgtgactgacg ... tgaaatgcagGTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
EST: gi|149084216|gb|EE173633.2|EE173633
EST:     GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGATGGCCCTTGGAAACAG                         GTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
genomic: GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGATGGCCCTTGGAAACAGgtgactgacg ... tgaaatgcagGTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
EST: gi|211453339|gb|FL002421.1|FL002421
EST:     GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGATGGCCCTTGGAAACAG                         GTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC
genomic: GGTTCATCTCCGCAGCGCCGATCCTCCTCCCCGATGGCCCTTGGAAACAGgtgactgacg ... tgaaatgcagGTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agctttggttgggattaagactgaacttggttacttgtgctggtgtgaaatgcagGTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTACAGTGGGTTGCGTGCCAAAGGCGAGAAGCCTGACTTGGCACTGGTCGCCT
             attaaga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgactgacgaaatgacaaggctggcaggcgcgggcacagggcatcggtgggagagctttggttgggattaagactgaacttggttacttgtgctggtgtgaaatgcagGTGGAAGGCGGCGTCACTGCCGCGAAGGGGTTCAAGGCGGCGGGTATCTACAGTGGGTTGCGTGCCAAAGGCGAGAAGCCTGACTTGGCACTGGTCGCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC