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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcaacttctgtctcttgaatgtttacttggtttttttgtggtattggtctaacattttttttattaccttgctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTCTCACAAGGCTGTTTCTGAGTACAAGGAGGCAAAAGCG

Basic information

species Zea mays
transcript GRMZM2G165747_T02
intron # 2
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|211333693|gb|FL127551.1|FL127551
EST:     AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTA                         CCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
genomic: AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTAgtaagtcaac ... ctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
EST: gi|31354595|gb|CD438952.1|CD438952
EST:     AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTA                         CCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
genomic: AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTAgtaagtcaac ... ctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
EST: gi|211327184|gb|FL127493.1|FL127493
EST:     AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTA                         CCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
genomic: AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTAgtaagtcaac ... ctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
EST: gi|211329358|gb|FL127511.1|FL127511
EST:     AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTA                         CCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
genomic: AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTAgtaagtcaac ... ctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
EST: gi|211331527|gb|FL127536.1|FL127536
EST:     AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTA                         CCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
genomic: AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTAgtaagtcaac ... ctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
EST: gi|32847989|gb|CD987670.1|CD987670
EST:     AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTA                         CCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
genomic: AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTAgtaagtcaac ... ctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
EST: gi|211329363|gb|FL127516.1|FL127516
EST:     AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTA                         CCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
genomic: AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTAgtaagtcaac ... ctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
EST: gi|211331524|gb|FL127533.1|FL127533
EST:     AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTA                         CCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
genomic: AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTAgtaagtcaac ... ctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
EST: gi|28930989|gb|CB334350.1|CB334350
EST:     AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTA                         CCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
genomic: AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTAgtaagtcaac ... ctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
EST: gi|32945161|gb|CF049980.1|CF049980
EST:     AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTA                         CCACTTCATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC
genomic: AATGCCACTGTCCCTGCTATGGAGATGACCAAGTGGTTTGATACAAACTAgtaagtcaac ... ctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggtttttttgtggtattggtctaacattttttttattaccttgctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTCTCACAAGGCTGTTTCTGAGTACAAGGAGGCAAAAGCG
                    gtctaac  putative branch site (score: 2)
                            ttttttttattacctt  CT-rich tract
                       taacattttttttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcaacttctgtctcttgaatgtttacttggtttttttgtggtattggtctaacattttttttattaccttgctcctcgcagCCACTTTATTGTCCCTGAACTTGGCCCAAGCACCAAGTTCACATACGCTTCTCACAAGGCTGTTTCTGAGTACAAGGAGGCAAAAGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG