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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatacattgtctcattttctcataatggatatgatgtatctgcaaaagctgaaacaaaattgcatgcactttgtagAAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTGAGGGCTGAATAAACCTTGGAGGACATCATAGGTCATTTTGGTTAGGTTC

Basic information

species Zea mays
transcript GRMZM2G012601_T02
intron # 8
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|13558577|gb|BG549933.1|BG549933
EST:     TCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTTGGACAG                         AAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
genomic: TCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTTGGACAGgtaatacatt ... cactttgtagAAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
EST: gi|88748344|gb|DY532485.1|DY532485
EST:     TCAAATACATTGACTTTTACAGCAGAGATATGGACCTCATTTTTGGACAG                         AAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
genomic: TCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTTGGACAGgtaatacatt ... cactttgtagAAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
EST: gi|113703135|gb|EE680639.1|EE680639
EST:     TCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTTGGACAG                         AAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
genomic: TCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTTGGACAGgtaatacatt ... cactttgtagAAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
EST: gi|13558246|gb|BG549602.1|BG549602
EST:     TCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTTGGACAG                         AAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
genomic: TCAAATACATTGACTTCTACAGCAGAGATATGGACCTCATTTTTGGACAGgtaatacatt ... cactttgtagAAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
EST: gi|211205847|gb|FL344232.1|FL344232
EST:     AGAGATATGGACCTCATTTTTGGACAG                         AAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
genomic: AGAGATATGGACCTCATTTTTGGACAGgtaatacatt ... cactttgtagAAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
EST: gi|16380338|gb|BI993438.1|BI993438
EST:     ACTTCTACAGCAGAGATATGGACCTCATTTTTGGGCAG                         AAGCAAATACACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG
genomic: ACTTCTACAGCAGAGATATGGACCTCATTTTTGGACAGgtaatacatt ... cactttgtagAAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatggatatgatgtatctgcaaaagctgaaacaaaattgcatgcactttgtagAAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTGAGGGCTGAATAAACCTTGGAGGACATCATAGGTCATTTTGGTTAGGTTC
                              aaacaaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatacattgtctcattttctcataatggatatgatgtatctgcaaaagctgaaacaaaattgcatgcactttgtagAAGCAAATGCACTACTTCCGCAGGAGGACGGCAAAGGAAATACTGAGTTTGAGGGCTGAATAAACCTTGGAGGACATCATAGGTCATTTTGGTTAGGTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA