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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgagcgaatcctaagtttcataatggcataaatccaattttctcacggcagggtgtagtagttggtaattgctgtttcggttggttggttcttttgcagAAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCTCCTACGGCTGCTGATGCTACGAACAAGAGGCCCAGGGTTAGTGCCTTCT

Basic information

species Zea mays
transcript GRMZM2G157836_T03
intron # 1
splice site 3'
intron type U2

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|211425392|gb|FL124251.1|FL124251
EST:     CGGCGTGCGGGCGTCCGCGGTCCATCCATCGATCCAATTCCAATCTGCAG                         AAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCT
genomic: CGGCGTGCGGGCGTCCGCGGTCCATCCATCGATCCAATTCCAATCTGCAGgtgagcagct ... tcttttgcagAAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCT
EST: gi|149023663|gb|EE045915.2|EE045915
EST:     CGGCGTGCGGGCGTCCGCGGTCCATCCATCGATCCAATTCCAATCTGCAG                         AAGAAGGGATCCAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTG
genomic: CGGCGTGCGGGCGTCCGCGGTCCATCCATCGATCCAATTCCAATCTGCAGgtgagcagct ... tcttttgcagAAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTG
EST: gi|148964308|gb|EC905707.2|EC905707
EST:     CGGCGTGCGGGCGTCCGCGGTCCATCCATCGATCCAATTCCAATCTGCAG                         AAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCT
genomic: CGGCGTGCGGGCGTCCGCGGTCCATCCATCGATCCAATTCCAATCTGCAGgtgagcagct ... tcttttgcagAAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCT
EST: gi|91051873|gb|EB162291.1|EB162291
EST:     CGGCGTGCGGGCGTCCGCGGTCCATCCATCGATCCAATTCCAATCTGCAG                         AAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCT
genomic: CGGCGTGCGGGCGTCCGCGGTCCATCCATCGATCCAATTCCAATCTGCAGgtgagcagct ... tcttttgcagAAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCT
EST: gi|71436780|gb|DR817830.1|DR817830
EST:     CGGCGTGCGGGCGTCCGCGGTCCATCCATCGATCCAATTCCAATCTGCAG                         AAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCT
genomic: CGGCGTGCGGGCGTCCGCGGTCCATCCATCGATCCAATTCCAATCTGCAGgtgagcagct ... tcttttgcagAAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acggcagggtgtagtagttggtaattgctgtttcggttggttggttcttttgcagAAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCTCCTACGGCTGCTGATGCTACGAACAAGAGGCCCAGGGTTAGTGCCTTCT
 ttctcac  putative branch site (score: 2)
                                            ttcttttgc  putative PPT
                                            ttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgagcgaatcctaagtttcataatggcataaatccaattttctcacggcagggtgtagtagttggtaattgctgtttcggttggttggttcttttgcagAAGAAGGGATCAAGGAACAGCGACCAGAGAAAGGCTGCGTCTGCTGCTGCTCCTACGGCTGCTGATGCTACGAACAAGAGGCCCAGGGTTAGTGCCTTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG