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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatggcgaataaaaacttctgtgttcttaagtgattttactggttgtgatatacgctagttacagttctgcactctaatctccatttgctgcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTCGCCGCATTATGGGTGACTCATCGGTTGGAAGAGCTGAAATATGCAGATG

Basic information

species Zea mays
transcript GRMZM2G111511_T04
intron # 4
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|18173493|gb|BM348881.1|BM348881
EST:     AAGTATTAGTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAG                         ATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
EST: gi|211373270|gb|FL465535.1|FL465535
EST:     AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAG                         ATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
EST: gi|211053231|gb|FL127757.1|FL127757
EST:     AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAG                         ATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
EST: gi|60394524|gb|DN227394.1|DN227394
EST:     AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAG                         ATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
EST: gi|17931952|gb|BM268912.1|BM268912
EST:     AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAG                         ATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
EST: gi|71434457|gb|DR815507.1|DR815507
EST:     AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAG                         ATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
EST: gi|32866994|gb|CF006676.1|CF006676
EST:     AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAG                         ATAGGCGTAATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
EST: gi|18165876|gb|BM335715.1|BM335715
EST:     AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAG                         ATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
EST: gi|17932020|gb|BM268980.1|BM268980
EST:     AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAG                         ATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
EST: gi|71434456|gb|DR815506.1|DR815506
EST:     AAGTATTACTGCTGGACGAACTGACCCCATTTTTAGATGAACATGACCAG                         ATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
EST: gi|14243054|gb|BG840773.2|BG840773
EST:     AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAG                         ATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC
genomic: AAGTATTACTGCTGGACGAACTGACCACATTCTTAGATGAACATGACCAGgtttgaatct ... gcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgatatacgctagttacagttctgcactctaatctccatttgctgcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTCGCCGCATTATGGGTGACTCATCGGTTGGAAGAGCTGAAATATGCAGATG
                           ctctaat  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatggcgaataaaaacttctgtgttcttaagtgattttactggttgtgatatacgctagttacagttctgcactctaatctccatttgctgcaactgcagATAGGCGTGATAAATGCAGTGAGGGACTCTGTGGCTGCCGATGGGGAGGTCGCCGCATTATGGGTGACTCATCGGTTGGAAGAGCTGAAATATGCAGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG