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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagttaactctgtttagtcatagtgtgaccagtggctatcattccttttgctctagctcctctgtaagcaggaaattaacaaccttttctgacttcgcagGCGTACAAAGAAATTAAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTGGTCGTGGAGTTTGTTTATCCTCATATAACGGTGCTTTGATTATAACTTA

Basic information

species Zea mays
transcript GRMZM2G165926_T01
intron # 10
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|14244816|gb|BG842754.2|BG842754
EST:     GACAAAACAGAAGACGATAAGAACTGATATAGCCATGTTCACGCTTCCAT                         GCGTACAAAGAAATTAAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTG
genomic: GACAAAACAGAAGACGATAAGAACTGATATAGCCATGTTCACGCTTCCATgtaagcgttc ... gacttcgcagGCGTACAAAGAAATTAAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTG
EST: gi|211072582|gb|FL217263.1|FL217263
EST:     GACAAAACAGAAGACGATAAGAACTGATATAGCCATGTTCACGCTTCCAT                         GCGTACAAAGAAATTAAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTG
genomic: GACAAAACAGAAGACGATAAGAACTGATATAGCCATGTTCACGCTTCCATgtaagcgttc ... gacttcgcagGCGTACAAAGAAATTAAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTG
EST: gi|33097806|gb|CF057766.1|CF057766
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCACGCTTCCAT                         GCGTACAAAGAAATTGAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTG
genomic: GACAAAACAGAAGACGATAAGAACTGATATAGCCATGTTCACGCTTCCATgtaagcgttc ... gacttcgcagGCGTACAAAGAAATTAAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTG
EST: gi|37383796|gb|CF628931.1|CF628931
EST:     GACAAAACAGAAGACGATAAGAACTGATATAGCCATGTTCACGCTTCCAT                         GCGTACAAAGAAATTAAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTG
genomic: GACAAAACAGAAGACGATAAGAACTGATATAGCCATGTTCACGCTTCCATgtaagcgttc ... gacttcgcagGCGTACAAAGAAATTAAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgctctagctcctctgtaagcaggaaattaacaaccttttctgacttcgcagGCGTACAAAGAAATTAAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTGGTCGTGGAGTTTGTTTATCCTCATATAACGGTGCTTTGATTATAACTTA
                                         ttctgac  putative branch site (score: 2)
                                     ccttttctgacttc  CT-rich tract
                           aaattaacaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cagttaactctgtttagtcatagtgtgaccagtggctatcattccttttgctctagctcctctgtaagcaggaaattaacaaccttttctgacttcgcagGCGTACAAAGAAATTAAAGACCGGTCTCCATTGACTGCGTTTACTCTCTTGGTCGTGGAGTTTGTTTATCCTCATATAACGGTGCTTTGATTATAACTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG