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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgaaacatgcattcttcatattgccccaaaacaaatttgcttatgatgttctgtatggaatgaaggttatgatactgatagttccaatcctctctccatcaactcccggaattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACCCAGCTGGTGTTTCCCAGTTGAGACCACTGAACAATTCAGCACCAGCAGC

Basic information

species Zea mays
transcript GRMZM2G177575_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|148971473|gb|EE022167.2|EE022167
EST:     TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATT                         GTTTTTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
genomic: TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATTgtaagtgaaa ... aattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
EST: gi|149106837|gb|EE188735.2|EE188735
EST:     TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATT                         GTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
genomic: TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATTgtaagtgaaa ... aattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
EST: gi|86469449|gb|DY235819.1|DY235819
EST:     TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATT                         GTTTTTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
genomic: TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATTgtaagtgaaa ... aattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
EST: gi|78086094|gb|DV514487.1|DV514487
EST:     TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATT                         GTTTTTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
genomic: TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATTgtaagtgaaa ... aattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
EST: gi|5650051|gb|AI920411.1|AI920411
EST:     TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATT                         GTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
genomic: TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATTgtaagtgaaa ... aattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
EST: gi|76293066|gb|DV032634.1|DV032634
EST:     TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATT                         GTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
genomic: TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATTgtaagtgaaa ... aattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
EST: gi|113701887|gb|EE679391.1|EE679391
EST:     TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATT                         GTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
genomic: TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATTgtaagtgaaa ... aattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
EST: gi|213178693|gb|FM194771.1|FM194771
EST:     TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATT                         GTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
genomic: TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATTgtaagtgaaa ... aattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
EST: gi|211383908|gb|FL466788.1|FL466788
EST:     TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATT                         GTTTCTCACCTTCAACATYTGAGAACTACTCTCCGCAGGAAGCAAGGAACC
genomic: TGTTGTGTTCGATCGGGAAAGGAAAATTCTTGGATGGAAGAAATTTAATTgtaagtgaaa ... aattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttatgatactgatagttccaatcctctctccatcaactcccggaattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACCCAGCTGGTGTTTCCCAGTTGAGACCACTGAACAATTCAGCACCAGCAGC
        tactgat  putative branch site (score: 2)
                                             aattcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgaaacatgcattcttcatattgccccaaaacaaatttgcttatgatgttctgtatggaatgaaggttatgatactgatagttccaatcctctctccatcaactcccggaattcatcagGTTTCTCACCTTCAACATCTGAGAACTACTCTCCGCAGGAAGCAAGGAACCCAGCTGGTGTTTCCCAGTTGAGACCACTGAACAATTCAGCACCAGCAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG