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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTGTGCAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaaccttctcttcggttgtaaattgcgtcaacccatattgttatgttgtttttgttttctcatgaattcctaaggatgcaactgaacagcagacac...

Basic information

species Zea mays
transcript GRMZM2G381051_T01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G381051_T03 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os05g03480.5 (Oryza sativa), 5'ss of exon 11
GATTGTGCAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaaccttctcttcggttgtaaattgcgtcaacccatattgttatgttgtttttgttttctcatgaattcctaaggatgcaactgaacagcagacac-----------
|||||||| || || |||||||||||||||||||  |||||||| |||||||||||||| |||||||| |||||  |   | ||||  |    || | ||     | | | ||| ||| ||||||||||  |  | |  | | |||   |     |            
GATTGTGCTGGTGTGATTCTCTTTGCTGCTGAAAGGGCAACCCAGGTTGCACTTCAGgtgaaaaccttgtcttcatt---acattggatt---ccgtgtt----cgctctgtttttttcctcatgaattattcggaacacga-tgatttggccctatttagttttctt
















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|211244133|gb|FL451950.1|FL451950
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|148952108|gb|EC897900.2|EC897900
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|24763821|gb|CA398992.1|CA398992
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|40333869|gb|CK367939.1|CK367939
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|148928298|gb|EE284912.2|EE284912
EST:     CAGGAGTAATTTTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|211502819|gb|FL436168.1|FL436168
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|149073601|gb|EE161904.2|EE161904
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|14529291|gb|BI096424.1|BI096424
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|37375704|gb|CF624307.1|CF624307
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|148949902|gb|EC895400.2|EC895400
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|31352282|gb|CD436639.1|CD436639
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|60356707|gb|DN223680.1|DN223680
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|5871129|gb|AW017570.1|AW017570
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|15214937|gb|BI431104.1|BI431104
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|8576983|gb|BE129620.1|BE129620
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGCGGAAATGGGTACATAAATGAGTACCCAACTG
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTG
EST: gi|40333885|gb|CK367955.1|CK367955
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|37399275|gb|CF636963.1|CF636963
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|213182546|gb|FM191704.1|FM191704
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAN                         NCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|78086928|gb|DV515321.1|DV515321
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|16925518|gb|BM078586.1|BM078586
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|86474638|gb|DY241008.1|DY241008
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|6095776|gb|AW120443.1|AW120443
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|86472558|gb|DY238928.1|DY238928
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|37394249|gb|CF634396.1|CF634396
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|6020797|gb|AW065725.1|AW065725
EST:     CAGGAGCAATTCTCTTTGTTGTTGAAAATGCAACCCAAGNTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|211184390|gb|FL255399.1|FL255399
EST:     CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
EST: gi|37375650|gb|CF624276.1|CF624276
EST:     CAGGAGTAATTTTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAG                         GCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT
genomic: CAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaacct ... tctatggcagGCAATCCAGTGTCTTGGTGGAAATGGGTACATAAATGAGTACCCAACTGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATTGTGCAGGAGTAATTCTCTTTGCTGCTGAAAATGCAACCCAAGTTGCACTTCAGgtaaaaaccttctcttcggttgtaaattgcgtcaacccatattgttatgttgtttttgttttctcatgaattcctaaggatgcaactgaacagcagacac

- - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - GCTGCT