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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgactagaagaatgttaaagaaaaatctaatcttgtcagtttctgaacaacatggtctaaaatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACCGATCCTCGACCAATCTGTGAGTTCCTCAAGCTATTCCGCCCACATGTTA

Basic information

species Zea mays
transcript GRMZM2G164352_T03
intron # 11
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|6526809|gb|AW216078.1|AW216078
EST:     GTCAAAAGCTGCTTCCAGTCGTCATTAATTTTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACC
genomic: GTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACC
EST: gi|32847987|gb|CD987668.1|CD987668
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
EST: gi|32929892|gb|CF034704.1|CF034704
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
EST: gi|32933390|gb|CF038202.1|CF038202
EST:     ATCACTTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCAAAGGACAG                         GGTTCCTAACATCAAGTTCAACGTTGC
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGC
EST: gi|16925494|gb|BM078562.1|BM078562
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACC
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACC
EST: gi|6827704|gb|AW331347.1|AW331347
EST:     ATCNCCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACC
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACC
EST: gi|32847664|gb|CD987345.1|CD987345
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCGAAAGTAC
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGTAC
EST: gi|32939366|gb|CF044185.1|CF044185
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
EST: gi|13557744|gb|BG549100.1|BG549100
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACC
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACC
EST: gi|33103273|gb|CF063233.1|CF063233
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCAAAAGTAC
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGTAC
EST: gi|32838745|gb|CD978426.1|CD978426
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
EST: gi|32928724|gb|CF033536.1|CF033536
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
EST: gi|32846843|gb|CD986524.1|CD986524
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGGTTCCCAACATCAAGTTCAATGTTGCAAAAGT
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGG-TTCCCAACATCAAGTTCAATGTTGCGAAAGT
EST: gi|32839365|gb|CD979046.1|CD979046
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGTTCCCAACACCAAGTTCAATGTTGCGAAAGT
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGT
EST: gi|33102660|gb|CF062620.1|CF062620
EST:     ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAG                         GGGTTCCCAACATCAAGTTCAATGTTGCAAAAGTAC
genomic: ATCACCTGTCAAAAGCTGCTTCCAGTCGTCATTAATTCTTCGAAGGACAGgtgtgtgact ... aatttttcagGG-TTCCCAACATCAAGTTCAATGTTGCGAAAGTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaagaaaaatctaatcttgtcagtttctgaacaacatggtctaaaatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACCGATCCTCGACCAATCTGTGAGTTCCTCAAGCTATTCCGCCCACATGTTA
                                       gtctaaa  putative branch site (score: 3)
                                               tttttc  CT-rich tract
     aaaaatctaatctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgtgactagaagaatgttaaagaaaaatctaatcttgtcagtttctgaacaacatggtctaaaatttttcagGGTTCCCAACATCAAGTTCAATGTTGCGAAAGTACTACAGTCACTTGTACCGATCCTCGACCAATCTGTGAGTTCCTCAAGCTATTCCGCCCACATGTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT