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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggacgcccttgcattgctttcttggagtgattgctcgtggtattctgcaaatatcagcttttgctgtgagcgctggatcaaatgtttctttctctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGTGATTGCGGTCGCGGATAGCTTGTGCAAGCTGTTGGCTTGGGAGTTATCT

Basic information

species Zea mays
transcript GRMZM2G137479_T02
intron # 2
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|50325214|gb|CO520340.1|CO520340
EST:     GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAG                         TCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
genomic: GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAGgtgaggacgc ... ctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
EST: gi|50326187|gb|CO521313.1|CO521313
EST:     GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAG                         TCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
genomic: GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAGgtgaggacgc ... ctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
EST: gi|211312062|gb|FL442680.1|FL442680
EST:     GGGG-GGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAG                         TCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
genomic: GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAGgtgaggacgc ... ctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
EST: gi|149083392|gb|EE172703.2|EE172703
EST:     GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAG                         TCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
genomic: GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAGgtgaggacgc ... ctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
EST: gi|31406080|gb|CD484812.1|CD484812
EST:     GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAG                         TCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
genomic: GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAGgtgaggacgc ... ctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
EST: gi|149084036|gb|EE173431.2|EE173431
EST:     GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAG                         TCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
genomic: GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAGgtgaggacgc ... ctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
EST: gi|211140433|gb|FL390022.1|FL390022
EST:     GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAG                         TCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
genomic: GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAGgtgaggacgc ... ctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
EST: gi|211307824|gb|FK975925.1|FK975925
EST:     GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAG                         TCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
genomic: GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAGgtgaggacgc ... ctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
EST: gi|148965556|gb|EE016384.2|EE016384
EST:     GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAG                         TCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
genomic: GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAGgtgaggacgc ... ctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
EST: gi|31406440|gb|CD485172.1|CD485172
EST:     GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAG                         TCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT
genomic: GGGGTGGAGCGGAGATCGGATCCGCCAGGAGCTGATTCCTTCTCTCGTAGgtgaggacgc ... ctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatatcagcttttgctgtgagcgctggatcaaatgtttctttctctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGTGATTGCGGTCGCGGATAGCTTGTGCAAGCTGTTGGCTTGGGAGTTATCT
                                    tttctttctctgcgtc  CT-rich tract
                               aaatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggacgcccttgcattgctttcttggagtgattgctcgtggtattctgcaaatatcagcttttgctgtgagcgctggatcaaatgtttctttctctgcgtccagTCTAGTTTGATGCGGATTCATTCGCTGACCGGCATAGCATGATCCTGCGGTGATTGCGGTCGCGGATAGCTTGTGCAAGCTGTTGGCTTGGGAGTTATCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT