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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatttcccagtgctagttttaattgttttgggaggtgtggattgtgatgccttgtcgttttatattgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGAGCGTGACAGGCAAAGAGCGAAGACCATCTGCTCTTTTATCAGTCAGTCA

Basic information

species Zea mays
transcript GRMZM2G143602_T01
intron # 9
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|61117728|gb|DN558689.1|DN558689
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|33103216|gb|CF063176.1|CF063176
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|60396112|gb|DN228981.1|DN228981
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|4680837|gb|AI629507.1|AI629507
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|71770652|gb|DR968589.1|DR968589
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|16377160|gb|BI991802.1|BI991802
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|60395786|gb|DN228656.1|DN228656
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|60343609|gb|DN210582.1|DN210582
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|29576767|gb|CB616879.1|CB616879
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|60340369|gb|DN207342.1|DN207342
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|211466861|gb|FL187159.1|FL187159
EST:     GCTTTTGGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTTCAACAAGTGAGAGCCGCTGAGAAC-GCAGGGACGCC
genomic: GCTTTTG-CGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGG-ACGCG
EST: gi|113703875|gb|EE681379.1|EE681379
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|78073838|gb|DV502272.1|DV502272
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|60395745|gb|DN228615.1|DN228615
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
EST: gi|16379175|gb|BI992806.1|BI992806
EST:     AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATG                         ACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA
genomic: AGCTTTTGCGTTATGATCATCAGGAGAGGCTTACTGCACTTGAAGCTATGgtgaatttcc ... attgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaattgttttgggaggtgtggattgtgatgccttgtcgttttatattgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGAGCGTGACAGGCAAAGAGCGAAGACCATCTGCTCTTTTATCAGTCAGTCA
 ttttaat  putative branch site (score: 3)
                                       ttttatattgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaatttcccagtgctagttttaattgttttgggaggtgtggattgtgatgccttgtcgttttatattgttgcagACGCACCCGTACTTCCAACAAGTGAGAGCCGCTGAGAACAGCAGGACGCGAGCGTGACAGGCAAAGAGCGAAGACCATCTGCTCTTTTATCAGTCAGTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA