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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttcttagaaaggaaatattgtcatttattattattattattattattattattatcatgctcaacatgatttttttttacgtttgcccttcttttcagTCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTTTCCTCCCTTCCCTGTCTGTCTTCCTTAAAGCTGGACAATAACCCCTTGG

Basic information

species Zea mays
transcript GRMZM2G015090_T01
intron # 12
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|211332985|gb|FL087715.1|FL087715
EST:     NTTCAATAGAAGATCTACCAAATGAGTTGTCATTATGCTCATCACTTCAA                         TCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCATACAGTGGTT
genomic: ATTCAATAGAAGATCTACCAAATGAGTTGTCATTATGCTCATCACTTCAAgtaagtttct ... ttcttttcagTCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTT
EST: gi|32825687|gb|CD965403.1|CD965403
EST:     GATCTACCAAATGAGTTGTCATTATGCTCATCACTTCAA                         TCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTT
genomic: GATCTACCAAATGAGTTGTCATTATGCTCATCACTTCAAgtaagtttct ... ttcttttcagTCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTT
EST: gi|32791127|gb|CD943363.1|CD943363
EST:     GATCTACCAAATGAGTTGTCATTATGCTCATCACTTCAA                         TCCTTAGTTTTGTCTAATAACAAGATAAAAGGGTGGCCTCACACAGTGGTT
genomic: GATCTACCAAATGAGTTGTCATTATGCTCATCACTTCAAgtaagtttct ... ttcttttcagTCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTT
EST: gi|211374390|gb|FK951698.1|FK951698
EST:     ATTCAATAGAAGATCTACCAAATGAGTTGTCATTATGCTCATCACTTCAA                         TCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCATACAGTGGTT
genomic: ATTCAATAGAAGATCTACCAAATGAGTTGTCATTATGCTCATCACTTCAAgtaagtttct ... ttcttttcagTCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTT
EST: gi|211332986|gb|FL087716.1|FL087716
EST:     CATTATGCTCATCACTTCAA                         TCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTT
genomic: CATTATGCTCATCACTTCAAgtaagtttct ... ttcttttcagTCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTT
EST: gi|211330833|gb|FL087712.1|FL087712
EST:     ATTCAATAGAAGATCTACCAAATGAGTTGTCATTATGCTCATCACTTCAA                         TCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCATACAGTGGTT
genomic: ATTCAATAGAAGATCTACCAAATGAGTTGTCATTATGCTCATCACTTCAAgtaagtttct ... ttcttttcagTCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattattattatcatgctcaacatgatttttttttacgtttgcccttcttttcagTCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTTTCCTCCCTTCCCTGTCTGTCTTCCTTAAAGCTGGACAATAACCCCTTGG
                          tttttttttacgtttg  CT-rich tract
                   aacatgattttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttcttagaaaggaaatattgtcatttattattattattattattattattattatcatgctcaacatgatttttttttacgtttgcccttcttttcagTCCTTAGTTTTGTCTAATAACAAGATAAAAAGGTGGCCTCACACAGTGGTTTCCTCCCTTCCCTGTCTGTCTTCCTTAAAGCTGGACAATAACCCCTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA