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

GGGACAGGCGCCATGACCGTGATCGGGATAGGGATTATGACCGCTCCCGTGGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctgaataatactcctcgtgtcacaaattataagacatctcccaaattataaggcgtcttagcttttctagatgtatttttttattatgtataca...

Basic information

species Zea mays
transcript GRMZM2G069916_T05
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069916_T04 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os03g62640.5 (Oryza sativa), 5'ss of exon 11
---GGGACAGGCGCCATGACCGTGATCGGGATAGGGATTATGACCGCTCCCGTGGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAG--------CA--Ggtattgctgaataatactc---------ctcgtgtcacaaattata------agacatctcccaaattataa-ggcgtcttagcttttctagat-gtatttttttattatgtataca-------------------------------------------
   ||||| | |||||||| || ||||||||||| ||||||||||| || ||||| |||||||||||||| || || ||||| || ||||||||||||||        ||  ||| |   ||   | | |||         || || |  | | ||||       | | |  |   | | ||||| | |     | |      | ||  | |  ||||  |||| | ||                                            
ATAGGGACCGCCGCCATGATCGCGATCGGGATAGAGATTATGACCGTTCGCGTGGCCATGATTCAAGGAGAAGGGAACGTTCTCGATCCAGGGAGCGCAGgtatggttcaatggtttctttgctcacttctctctgcctttcttgtatagcgatttattccgaccataaacttttgacagtataatgacaaagaaacacaatgaaattatctgcttttgatatggaaacctttatatcactaggagctaacattagacagttgttattttcag
















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|60351428|gb|DN218401.1|DN218401
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|30052552|gb|AI065841.2|AI065841
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|9952074|gb|BE638657.1|BE638657
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|148929409|gb|EC875422.2|EC875422
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCCCGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|83278840|gb|DV942848.1|DV942848
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|32833686|gb|CD973364.1|CD973364
EST:     GGACATAATACAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGGTTACACCATGCCTGACAGATTTAGGAGT
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATG-TTACACCATGCCTGACAGATTTAGGAGT
EST: gi|149000972|gb|EE038212.2|EE038212
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATCCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|148973851|gb|EE024992.2|EE024992
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCCCGAGAGATACTAAATGTTACCCCATCCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|60343955|gb|DN210928.1|DN210928
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|211517868|gb|FL476359.1|FL476359
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|211445567|gb|FL157339.1|FL157339
EST:     GACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCA-GGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|89761162|gb|DY689288.1|DY689288
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|88756296|gb|DY540437.1|DY540437
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|32838976|gb|CD978657.1|CD978657
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGGTTACACCATGCCTGACAGATTTAGGAGT
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATG-TTACACCATGCCTGACAGATTTAGGAGT
EST: gi|211445566|gb|FL157338.1|FL157338
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|71330189|gb|DR801853.1|DR801853
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|88757903|gb|DY542044.1|DY542044
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|83278696|gb|DV942704.1|DV942704
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|76920399|gb|DV168154.1|DV168154
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATCCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|60400106|gb|DN232913.1|DN232913
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|8665973|gb|BE186789.1|BE186789
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAAGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|88757902|gb|DY542043.1|DY542043
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAG                         GCGCCACGAGAGATACTAAATGTTACACCATCCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA
EST: gi|148952946|gb|EE152419.2|EE152419
EST:     GGACATGATTCAAGGAGGAGAGAGCGTTCCCGCTCCAGGGAGCGCAGCAG                         GCGCCCCGAGAGATACTAAATGTTACCCCATCCCTGACAGATTTAGGAGTA
genomic: GGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctga ... ccaatttcagGCGCCACGAGAGATACTAAATGTTACACCATGCCTGACAGATTTAGGAGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGACAGGCGCCATGACCGTGATCGGGATAGGGATTATGACCGCTCCCGTGGACATGATTCAAGGAGGAGAGAGCGTTCACGCTCCAGGGAGCGCAGCAGgtattgctgaataatactcctcgtgtcacaaattataagacatctcccaaattataaggcgtcttagcttttctagatgtatttttttattatgtataca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA