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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattctcctcttgaaagaccacttatatctgaggcgtgttggatacttataagtgcctgatttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACTATCCTAATTGACCAG

Basic information

species Zea mays
transcript GRMZM2G046558_T01
intron # 5
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|30591380|gb|CD052344.1|CD052344
EST:     GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGAT-GGGAA                         GAATATGACGCAACCTGCCTGATTAAAA
genomic: GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct ... atttgtgtagGAATATGACGCAACCTGCCTGATTAAAA
EST: gi|60400942|gb|DN233749.1|DN233749
EST:     GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAG                         GAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
genomic: GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct ... atttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
EST: gi|60400756|gb|DN233563.1|DN233563
EST:     GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAG                         GAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
genomic: GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct ... atttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
EST: gi|60400609|gb|DN233416.1|DN233416
EST:     GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAG                         GAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
genomic: GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct ... atttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
EST: gi|6194555|gb|AW146659.1|AW146659
EST:     GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAG                         GAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT
genomic: GTCAGAAAGCATTCTCAAATTACCTGGGCTCAACTAAATCAGATTGGGAGgtattctcct ... atttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagaccacttatatctgaggcgtgttggatacttataagtgcctgatttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACTATCCTAATTGACCAG
                                        gcctgat  putative branch site (score: 4)
                            atacttataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattctcctcttgaaagaccacttatatctgaggcgtgttggatacttataagtgcctgatttgtgtagGAATATGACGCAACCTGCCTGATTAAAAAGAACAGCAAAGTTCCCACTACTATCCTAATTGACCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG