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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttccttcccttcccatctcgtactcgtacatccattccctgcctgctgttccttggcccagctgtgcgcgcgcgctgccggttccggcttccggccaagcaagcctgcaaatccaccacctcgctgtcgtttacgtactctagctcgttcgtcgtgtctcgtgcgtgtgcgtgcgcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCGTTCGACCACCCCAGGCTGAGAGGGCAGGAGCCCGAG

Basic information

species Zea mays
transcript GRMZM2G162928_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G162928_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g07570.1 (Oryza sativa), 3'ss of exon 1
gttccttcccttcccatctcgtactcgtacatccattccctgcctgctgttccttggcccagctgtgcgcgcgcgctgccggttccggcttccggccaagcaagcctgcaaatccaccacctcgctgtcgtttacgtactctagctcgttcgtcgtgtctcgtgcgtgtgcgtgcgcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCGTTCGACCACCCCAGGCTGAGAGGGCAGGAGCCCGAG
                                                                    ||     || |   |||    |      |        ||     ||   ||| | |||   | || |      |||||     |  | ||   |||   |||  || | |  ||||||||||||||||||| |||||| |||||||||||||||||||||||||||||||||| ||||| | |||| |||| ||| ||||||||
--------------------------------------------------------------------gcaatttcttcttcttcttcttcttcttcttcttcttctttgcttctctcac-tagcta--gcttgctaggagtagctgagctgatg-gtgctgtg---gtgtttgtgtgcatgcagAGCCCCGACGGCGATGTCATCGACTGCGTGCCGGCGCACCTGCAGCCGGCGTTCGAGCACCCGAAGCTGCGAGGACAGAAGCCCGAG
















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|149100217|gb|EE186279.2|EE186279
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
EST: gi|71306485|gb|DR789390.1|DR789390
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
EST: gi|149009618|gb|EE041571.2|EE041571
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
EST: gi|148965587|gb|EE016422.2|EE016422
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
EST: gi|89761374|gb|DY689412.1|DY689412
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
EST: gi|149014649|gb|EE044313.2|EE044313
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
EST: gi|93282303|gb|EB674567.1|EB674567
EST:     TCATGGCGCGCATTGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCG
EST: gi|71330806|gb|DR802200.1|DR802200
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
EST: gi|78075240|gb|DV503674.1|DV503674
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
EST: gi|74240097|gb|DT648011.1|DT648011
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTTGCGTGCCGGCGCACCTGCAGCCGGC
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACT-GCGTGCCGGCGCACCTGCAGCCGGC
EST: gi|148954070|gb|EC899469.2|EC899469
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
EST: gi|149070038|gb|EE158438.2|EE158438
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
EST: gi|74241355|gb|DT649269.1|DT649269
EST:     TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAG                         AGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG
genomic: TCATGGCGCGCATGGCCAGGATGGACAAGGACTCCAACATGACGATACAGgttccttccc ... gcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttccttcccttcccatctcgtactcgtacatccattccctgcctgctgttccttggcccagctgtgcgcgcgcgctgccggttccggcttccggccaagcaagcctgcaaatccaccacctcgctgtcgtttacgtactctagctcgttcgtcgtgtctcgtgcgtgtgcgtgcgcgtgtgcagAGCCCCGACGGCGACGTCATCCACTGCGTGCCGGCGCACCTGCAGCCGGCGTTCGACCACCCCAGGCTGAGAGGGCAGGAGCCCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -CGGCGACG