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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagcgtctgtggtccccttctccggtcccgtctgatggaaagctcgctcacgcgtttgctggctgtgggctctgataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTCGGAGAAGGGCGTCCTCACCTACGGGAGGCTGAGCCTCACGCGGGTTCTC

Basic information

species Zea mays
transcript GRMZM2G069008_T04
intron # 1
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|211274443|gb|FL232535.1|FL232535
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274444|gb|FL232536.1|FL232536
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274431|gb|FL232523.1|FL232523
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274439|gb|FL232531.1|FL232531
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCSAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGGAACCTGCAGT
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGG-AACCTGCAGT
EST: gi|211274434|gb|FL232526.1|FL232526
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274435|gb|FL232527.1|FL232527
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274436|gb|FL232528.1|FL232528
EST:     CCCTGTMMATCGTCAGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: CCCTGT-CCTCGTC-GTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|149074765|gb|EE163195.2|EE163195
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|71311098|gb|DR791863.1|DR791863
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274445|gb|FL232537.1|FL232537
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTC--TGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274441|gb|FL232533.1|FL232533
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211276250|gb|FL232539.1|FL232539
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGTAACCTGCAGT
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGG-AACCTGCAGT
EST: gi|6021120|gb|AW066048.1|AW066048
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274437|gb|FL232529.1|FL232529
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|148991430|gb|EE032932.2|EE032932
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274440|gb|FL232532.1|FL232532
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|148942503|gb|EC887518.2|EC887518
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|67016855|gb|CO445604.1|CO445604
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|76926121|gb|DV170728.1|DV170728
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|15313833|gb|BI478977.1|BI478977
EST:     GCCCCTGTCCTCGTCG-GGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274442|gb|FL232534.1|FL232534
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
EST: gi|211274432|gb|FL232524.1|FL232524
EST:     GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAG                         GAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC
genomic: GCCCCTGTCCTCGTCGTGGGCGCGCCGGGGCTCCCCGAGGCTGACTTCAGgtcagcgtct ... ataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagcgtctgtggtccccttctccggtcccgtctgatggaaagctcgctcacgcgtttgctggctgtgggctctgataagcgcagGAACGCGGTGGAGTCGTCGCTGTTCAAGCAGTGGCTGCGGAACCTGCAGTCGGAGAAGGGCGTCCTCACCTACGGGAGGCTGAGCCTCACGCGGGTTCTC

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