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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtgtgttaagttatttagaacaaattatgctgcagcctatgatttttattttgtgtacttatttatttcttctacactaaaatagtgctacttttcagCTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG

Basic information

species Zea mays
transcript GRMZM2G171469_T02
intron # 6
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|78108686|gb|DV527104.1|DV527104
EST:     GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAG                         CTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
genomic: GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAGgtattctccc ... tacttttcagCTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
EST: gi|149017006|gb|EE045660.2|EE045660
EST:     GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAG                         CTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
genomic: GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAGgtattctccc ... tacttttcagCTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
EST: gi|91873273|gb|EB403230.1|EB403230
EST:     GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAG                         CTACATCCCTTGT-CGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
genomic: GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAGgtattctccc ... tacttttcagCTACATCC-TTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
EST: gi|71322323|gb|DR797838.1|DR797838
EST:     GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAG                         CTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGGAG
genomic: GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAGgtattctccc ... tacttttcagCTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGG-AG
EST: gi|74237785|gb|DT645699.1|DT645699
EST:     GTGGAAACCAGTTCAAGCCGTGGTAATTTTG-CAAAGATGGTCTTTGCAG                         CTACCTCCTTGTTCGCTGCCTTTTGGTTCCCTT
genomic: GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAGgtattctccc ... tacttttcagCTACATCCTTGTTCGCTGCCTTT-GGTTTCCTT
EST: gi|76018861|gb|DT946031.1|DT946031
EST:     GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAG                         CTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
genomic: GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAGgtattctccc ... tacttttcagCTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
EST: gi|5895618|gb|AW036864.1|AW036864
EST:     GTGGAAACCAGTTCAAGCCGNGGTAATTTTGTCAAAGATGTTCTTTGCAG                         CTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
genomic: GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAGgtattctccc ... tacttttcagCTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
EST: gi|50333507|gb|CO528633.1|CO528633
EST:     GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAG                         CTACATCCTTGTTCGCTGCCTTTGG
genomic: GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAGgtattctccc ... tacttttcagCTACATCCTTGTTCGCTGCCTTTGG
EST: gi|71770532|gb|DR968469.1|DR968469
EST:     GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAG                         CTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
genomic: GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAGgtattctccc ... tacttttcagCTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
EST: gi|149075806|gb|EE164341.2|EE164341
EST:     GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAG                         CTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCT
genomic: GTGGAAACCAGTTCAAGCCGTGGTAATTTTGTCAAAGATGTTCTTTGCAGgtattctccc ... tacttttcagCTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttattttgtgtacttatttatttcttctacactaaaatagtgctacttttcagCTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG
                               cactaaa  putative branch site (score: 2)
                                            ctacttttc  putative PPT
            tacttatttatttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgtgtgttaagttatttagaacaaattatgctgcagcctatgatttttattttgtgtacttatttatttcttctacactaaaatagtgctacttttcagCTACATCCTTGTTCGCTGCCTTTGGTTTCCTTCTCTATGGAGGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG