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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGTCATCTGGAGTAAATGGTGGTGTGACCAATCCATCACCCAATAAGGATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgctgccttctgcacatctatcattaaatgttggcgcttccttgaaactacctgatcatggatttcttccatgtttaagttttgtaccaaaca...

Basic information

species Zea mays
transcript GRMZM2G163912_T03
intron # 2
splice site 5'
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|211431804|gb|FL298785.1|FL298785
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|31350916|gb|CD435273.1|CD435273
EST:     GCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: GCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|148969207|gb|EE019955.2|EE019955
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|211431802|gb|FL298783.1|FL298783
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTNAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|149026634|gb|EE046054.2|EE046054
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|211431805|gb|FL298786.1|FL298786
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|89757168|gb|DY686883.1|DY686883
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCCGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|211431800|gb|FL298781.1|FL298781
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|211431801|gb|FL298782.1|FL298782
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|148940178|gb|EC884940.2|EC884940
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|211431803|gb|FL298784.1|FL298784
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|32910548|gb|CF015360.1|CF015360
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|87156202|gb|DY400991.1|DY400991
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|148993804|gb|EE033889.2|EE033889
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|149104910|gb|EE290380.2|EE290380
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTG
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTG
EST: gi|22521109|gb|BU079920.1|BU079920
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|149001239|gb|EE038515.2|EE038515
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|26558978|gb|CA831213.1|CA831213
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATCTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|148944987|gb|EC890160.2|EC890160
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|149099628|gb|EE185673.2|EE185673
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|87156913|gb|DY401702.1|DY401702
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|32867073|gb|CF006755.1|CF006755
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|22473217|gb|BU037697.1|BU037697
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|50333496|gb|CO528622.1|CO528622
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
EST: gi|22520704|gb|BU079515.1|BU079515
EST:     ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAG                         TGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC
genomic: ATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgc ... tttgtttcagTGTACGCCGTTGGCACCTAGGAAGACTTTGCAGCCTGAGCAAGCATTTCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGGTCATCTGGAGTAAATGGTGGTGTGACCAATCCATCACCCAATAAGGATAAATCTGGTGATAAAAGTAGCATCTCTCCAGCAAGCATGACAAAGAAGgtatggttgctgccttctgcacatctatcattaaatgttggcgcttccttgaaactacctgatcatggatttcttccatgtttaagttttgtaccaaaca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG