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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caccccatccatgcatttaaatatgtatattaaaaatattaatgtggtttatgtccaatgcatttcttaactaactaccttcatctaacacaatatttagGGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAGAAAGCCAGGAACAGAACTTAGGCGTTGGCGATTGGCATCTCCCTCCCCT

Basic information

species Zea mays
transcript GRMZM2G094614_T01
intron # 6
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|32835696|gb|CD975374.1|CD975374
EST:     GCAAGGGAGGAAAACACTATAGTTGACCTCAATGTTCAAAGGATGGCCAG                         GGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAG
genomic: GCAGGGGAGGAAAACACTATAGTTGACCTCAATGTTCAAAGGATGGCCAGgtatttcttt ... caatatttagGGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAG
EST: gi|33100148|gb|CF060108.1|CF060108
EST:     GCAAGGGAGGAAAACACTATAGTTGACCTCAATGTTCAAAGGATGGCCAG                         GGCTACATCATCTTGTTGTTGACGGGTTCCATGTGTTCAATCGCCGAGCAG
genomic: GCAGGGGAGGAAAACACTATAGTTGACCTCAATGTTCAAAGGATGGCCAGgtatttcttt ... caatatttagGGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAG
EST: gi|32833425|gb|CD973103.1|CD973103
EST:     GCAAGGGAGGAAAACACTATAGTTGACCTC-ATGGTCAAAGGATGGCCAG                         GGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAG
genomic: GCAGGGGAGGAAAACACTATAGTTGACCTCAATGTTCAAAGGATGGCCAGgtatttcttt ... caatatttagGGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAG
EST: gi|32845936|gb|CD985617.1|CD985617
EST:     GCAAGGGAGGAAAACACTATAGTTGACCTCAATGTTCAAAGGATGGCCAT                         GGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAG
genomic: GCAGGGGAGGAAAACACTATAGTTGACCTCAATGTTCAAAGGATGGCCAGgtatttcttt ... caatatttagGGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAG
EST: gi|33100339|gb|CF060299.1|CF060299
EST:     GCAAGGGAGGAAAACACTATAGTTGACCTCAATGTTTAAAGGATGGCCAG                         GGCTACATCATCTTGTTGTTGACGGGTTCCATGTGTTCAATCGCCGAGCAG
genomic: GCAGGGGAGGAAAACACTATAGTTGACCTCAATGTTCAAAGGATGGCCAGgtatttcttt ... caatatttagGGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAG
EST: gi|33100364|gb|CF060324.1|CF060324
EST:     GCAAGGGAGGAAAACACTATAGTTGACCTCAATGTTCAAAGGATGGCCAG                         GGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAG
genomic: GCAGGGGAGGAAAACACTATAGTTGACCTCAATGTTCAAAGGATGGCCAGgtatttcttt ... caatatttagGGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttatgtccaatgcatttcttaactaactaccttcatctaacacaatatttagGGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAGAAAGCCAGGAACAGAACTTAGGCGTTGGCGATTGGCATCTCCCTCCCCT
                                        taacacaatattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caccccatccatgcatttaaatatgtatattaaaaatattaatgtggtttatgtccaatgcatttcttaactaactaccttcatctaacacaatatttagGGCTACATCATCTTGTTGTTGACGGGTTCCGTGTGTTCAATCGCCGAGCAGAAAGCCAGGAACAGAACTTAGGCGTTGGCGATTGGCATCTCCCTCCCCT

- - - -tccatgc
- - - - - atgcatt
- - - - - - - - - - atatgta
- - - - - - - - - - - - - - - -aaaaata