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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggcaccctgcttgcgatcctattgtctgatgaatctgtctcgtgatatcatggagaaatctttttttggttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAGGTCCCTCAACTTCCCCGTCGTCGACGACTGGAGGGCGTGGCATCTCGGT

Basic information

species Zea mays
transcript GRMZM2G471269_T02
intron # 10
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|71762617|gb|DR960554.1|DR960554
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|5108189|gb|AI739902.1|AI739902
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|78027468|gb|DV495855.1|DV495855
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|78111058|gb|DV529455.1|DV529455
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|78120814|gb|DV539198.1|DV539198
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|148949256|gb|EC894699.2|EC894699
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|110533510|gb|EE037690.1|EE037690
EST:     CCACCGGAACCTGAGGTCCAGAGGCTCCCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: CCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|14203015|gb|BG836692.1|BG836692
EST:     AAGTACCACCGGAACCTGACGTCCAGAGG-TACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|78083939|gb|DV512332.1|DV512332
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|211272707|gb|FL458993.1|FL458993
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|211231289|gb|FL464293.1|FL464293
EST:     AAGTACCACCGGAACCTTACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|88750452|gb|DY534593.1|DY534593
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|111145649|gb|EE257973.1|EE257973
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|5069690|gb|AI737655.1|AI737655
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|8401242|gb|BE056876.1|BE056876
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|71299116|gb|DR785562.1|DR785562
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|211175969|gb|FL481229.1|FL481229
EST:     AAGTACCACCGGAACCTGACGTCCAGAGG-TACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|74233921|gb|DT641835.1|DT641835
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|110516814|gb|EE021401.1|EE021401
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|78026574|gb|DV494961.1|DV494961
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|78125073|gb|DV543457.1|DV543457
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|148966524|gb|EE017546.2|EE017546
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|37397736|gb|CF636176.1|CF636176
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
EST: gi|40337181|gb|CK371251.1|CK371251
EST:     AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAG                         CGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG
genomic: AAGTACCACCGGAACCTGACGTCCAGAGGCTACCGCGCCCTGGTGTACAGgtaaggcacc ... ttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgatgaatctgtctcgtgatatcatggagaaatctttttttggttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAGGTCCCTCAACTTCCCCGTCGTCGACGACTGGAGGGCGTGGCATCTCGGT
 gtctgat  putative branch site (score: 4)
                             agaaatcttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggcaccctgcttgcgatcctattgtctgatgaatctgtctcgtgatatcatggagaaatctttttttggttggttgcagCGGCGACCATGACCTGCTGGTGCCACACCTGGGCACCCAGGCATGGGTCAGGTCCCTCAACTTCCCCGTCGTCGACGACTGGAGGGCGTGGCATCTCGGT

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