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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtagcttgttctttcctgtttcctttcattgaagtgagaattccatgctttatatcattacttgttacttggatcatgttatgtagcaagggaacctaatgatttaattaccaccatcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTCCCCAAAGTTTACATTCTG

Basic information

species Zea mays
transcript GRMZM2G023289_T01
intron # 7
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|31353596|gb|CD437953.1|CD437953
EST:     TTTGATGTGGATGTCTTTGACTCTAGTTTAAATTACATAAAATTAATGAA                         GACAATTTTTGACTTCGAAGCAATAAAAAAGCTGCTGACCTCCCCAAAGTT
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTCCCCAAAGTT
EST: gi|211538908|gb|FL379332.1|FL379332
EST:     TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAA                         GACNATTTTTGACTTCGAAGCAATAAAAAAGCTACTGGAC-TCCCCAAAGN
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTG-ACCTCCCCAAAGT
EST: gi|149106401|gb|EE292127.2|EE292127
EST:     TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAA                         GACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTC
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTC
EST: gi|211079915|gb|FL412204.1|FL412204
EST:     TTTGATGTGGATGTCTTTGACTCTAGTGTAA-TTACATAAAGT-AATGAA                         GACAATTTTTGACT
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACT
EST: gi|67021929|gb|CO450678.1|CO450678
EST:     TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAA                         GACAATTTTTGACTTCGAA-CAATAAAAAAGCTACTNGACCTCCCCAA-GT
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACT-GACCTCCCCAAAGT
EST: gi|211111130|gb|FL394545.1|FL394545
EST:     TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTA-TGGA                         GACAATTTTTGACTTCGAA
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACTTCGAA
EST: gi|211503690|gb|FL022245.1|FL022245
EST:     TTTGATGNGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAA                         GACAATTTTTGACTTCGAAGCAATAAAAAAGCTGCTGACCTCCCCAAAGTT
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTCCCCAAAGTT
EST: gi|211394811|gb|FL369335.1|FL369335
EST:     TTGGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAA                         A
genomic: TTG-ATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcag-
EST: gi|211394811|gb|FL369335.1|FL369335
EST:     TTGGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAA                         A
genomic: TTG-ATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcag-
EST: gi|31356531|gb|CD440888.1|CD440888
EST:     TTTGATGTGGATGTCTTTGACTCTAGTTTAAATTACATAAAATTAATGAA                         GACAATTTTTGACTTCGAAGCAATAAAAAAGCTGCTGACCTCCCCA
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTCCCCA
EST: gi|31354050|gb|CD438407.1|CD438407
EST:     TTTGATGTGGATGTCTTTGACTCTAGTTTAAATTACATAAAATTAATGAA                         GACAATTTTTGACTTCGAAGCAATAAAAAAGCTGCTGACCTCCCCAAAGTT
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTCCCCAAAGTT
EST: gi|211445226|gb|FL373040.1|FL373040
EST:     TTGATGTGGATGTCTTTGACTCTAGTGTAAATTTACATAA-GT-AATGAA                         GACAATTTTTGAC
genomic: T-GATGTGGATGTCTTTGACTCTAGTGTAAATT-ACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGAC
EST: gi|31351485|gb|CD435842.1|CD435842
EST:     TTTGATGTGGATGTCTTTGACTCTAGTTTAAATTACATAAAATTAATGAA                         GACAATTTTTGACTTCGAAGCAATAAAAAAGCTGCTGACCTCCCCAAAGTT
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTCCCCAAAGTT
EST: gi|149060809|gb|EE157261.2|EE157261
EST:     TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAA                         GACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTCCCCAAAGTT
genomic: TTTGATGTGGATGTCTTTGACTCTAGTGTAAATTACATAAAGTTAATGAAgtgagtagct ... tcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTCCCCAAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatcatgttatgtagcaagggaacctaatgatttaattaccaccatcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTCCCCAAAGTTTACATTCTG
                         taatgatttaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtagcttgttctttcctgtttcctttcattgaagtgagaattccatgctttatatcattacttgttacttggatcatgttatgtagcaagggaacctaatgatttaattaccaccatcaatttcagGACAATTTTTGACTTCGAAGCAATAAAAAAGCTACTGACCTCCCCAAAGTTTACATTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA