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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttttgttgttgttgttgttgttgttgttgaaggaaaaggatgatgacagcacattatttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCTAAAG

Basic information

species Zea mays
transcript GRMZM2G157034_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|211305745|gb|FK970548.1|FK970548
EST:     AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAG                         CTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGAT-CCACT
genomic: AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAGgtgagttttg ... ttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACT
EST: gi|111433430|gb|EE297747.1|EE297747
EST:     AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAG                         CTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT
genomic: AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAGgtgagttttg ... ttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT
EST: gi|148969157|gb|EE019898.2|EE019898
EST:     AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTTTACCAGATCAG                         CTGGTCTGCCGACAGTAGGCTTTTACTAAGTGGAAGCAAGGATTCCACTCT
genomic: AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAGgtgagttttg ... ttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT
EST: gi|33095385|gb|CF055379.1|CF055379
EST:     AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAG                         CTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT
genomic: AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAGgtgagttttg ... ttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT
EST: gi|33092990|gb|CF052984.1|CF052984
EST:     AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAG                         CTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT
genomic: AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAGgtgagttttg ... ttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT
EST: gi|110202220|gb|EC884117.1|EC884117
EST:     AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAG                         CTGGTCTGCCGACAGTAGGCTTTTATTAAGTGGAAGCAAGGATTCCACTCT
genomic: AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAGgtgagttttg ... ttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT
EST: gi|148960782|gb|EE011442.2|EE011442
EST:     AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAG                         CTGGTCTGCCGACAGTAGGCTTTTACTAAGTGGAAGCAAGGATTCCACTCT
genomic: AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAGgtgagttttg ... ttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT
EST: gi|32928456|gb|CF033268.1|CF033268
EST:     AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAG                         CTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT
genomic: AAATTTGTTGCAGCATTCAGAGGGCACGTTGCAGATGTCTACCAGATCAGgtgagttttg ... ttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgttgttgttgttgaaggaaaaggatgatgacagcacattatttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCTAAAG
                                         ttatttctct  CT-rich tract
                                      acattattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttttgttgttgttgttgttgttgttgttgaaggaaaaggatgatgacagcacattatttctctgtagCTGGTCTGCCGACAGTAGGCTTCTACTAAGTGGAAGCAAGGATTCCACTCTAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG