Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcagcatttgtttccagattcttttactttgttgatgtcagttcttgagtttccttttgctgaactagtacttatttgccaccttttctcttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGACCTAAAGCCAGGGAACCTCCTGGTCAACGCAAACTGTGACCTGAAGATAT

Basic information

species Zea mays
transcript GRMZM2G048455_T01
intron # 3
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|148971968|gb|EE022765.2|EE022765
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|211115832|gb|FL357315.1|FL357315
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|76925341|gb|DV170391.1|DV170391
EST:     AGTCATCTCCACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGG
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGG
EST: gi|148944537|gb|EC889659.2|EC889659
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|148976341|gb|EE025924.2|EE025924
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTNGA-GTACCTCCATTCAGCCGGGATACTCCACAGAGA
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCT-GAAGTACCTCCATTCAGCCGGGATACTCCACAGAGA
EST: gi|76287945|gb|DV027513.1|DV027513
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|88756056|gb|DY540197.1|DY540197
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTG
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTG
EST: gi|47962771|gb|CN845480.1|CN845480
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|211329270|gb|FL352880.1|FL352880
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|211222841|gb|FL345049.1|FL345049
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|71757469|gb|DR955406.1|DR955406
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|76012144|gb|DT939314.1|DT939314
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|78109405|gb|DV527821.1|DV527821
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|211302625|gb|FL366318.1|FL366318
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|211523399|gb|FL360214.1|FL360214
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
EST: gi|31353430|gb|CD437787.1|CD437787
EST:     AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAG                         CTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC
genomic: AGTCATCTCAACCACTATCCAATGACCACTGCCAGTATTTCCTTTTTCAGgtaagtttcg ... ttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagtttccttttgctgaactagtacttatttgccaccttttctcttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGACCTAAAGCCAGGGAACCTCCTGGTCAACGCAAACTGTGACCTGAAGATAT
                                           tcttgac  putative branch site (score: 3)
                         cttatttgccaccttt  CT-rich tract
                       tacttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcagcatttgtttccagattcttttactttgttgatgtcagttcttgagtttccttttgctgaactagtacttatttgccaccttttctcttgactgtagCTGCTCCGAGGCCTGAAGTACCTCCATTCAGCCGGGATACTCCACAGAGACCTAAAGCCAGGGAACCTCCTGGTCAACGCAAACTGTGACCTGAAGATAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA