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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttatcatgtattcagaattagtagtagcattgttcaattggccaaatctttatgtgttcataaaagagttttacatatagGTCGCAGGAAAAGGAATTATCGGCATAAGTGTTTACACATTTTGGGCTTATCCATTAACAAATTCTACTGTCGATTTAGAAGCAACAAAAAGATGTCAGG

Basic information

species Oryza sativa
transcript LOC_Os01g70520.1
intron # 7
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|29612788|gb|CB617801.1|CB617801
EST:     TGTTACTGGCACATGCATCAGTCACAAAACTGTACAGAGAAAAATACCAA                         GTCGCAGGAAAAGGAATTATCGGCATAAGTGTTTACACATTTTGGGGCT-A
genomic: TGTTACTGGCACATGCATCAGTCACAAAACTGTACAGAGAAAAATACCAAgtgagttatc ... ttacatatagGTCGCAGGAAAAGGAATTATCGGCATAAGTGTTTACACATTTTGGG-CTTA
EST: gi|58678434|gb|CK067121.1|CK067121
EST:     TGTTACTGGCACATGCATCAGTCACAAAACTGTACAGAGAAAAATACCAA                         GTCGCAGGAAAAGGAATTATCGGCATAAGTGTTTACACATTGTGGGCTTAT
genomic: TGTTACTGGCACATGCATCAGTCACAAAACTGTACAGAGAAAAATACCAAgtgagttatc ... ttacatatagGTCGCAGGAAAAGGAATTATCGGCATAAGTGTTTACACATTTTGGGCTTAT
EST: gi|29619009|gb|CB624021.1|CB624021
EST:     TGTTACTGGCACATGCATCAGTCACAAAACTGTACAGAGAAAAATACCAA                         GTCGCAGGAAAAGGAATTATCGGCATAAGTGTTTACACATTTTGGGGCTTA
genomic: TGTTACTGGCACATGCATCAGTCACAAAACTGTACAGAGAAAAATACCAAgtgagttatc ... ttacatatagGTCGCAGGAAAAGGAATTATCGGCATAAGTGTTTACACATTTTGGG-CTTA
EST: gi|117242417|gb|CT842994.1|CT842994
EST:     TGTTACTGGCACATGCATCAGTCACAAAACTGTACAGAGAAAAATACCAA                         GTCGCAAGAAAAGGAATTATCGGCATAAGTGTTTACACATTTTGGGCTTAT
genomic: TGTTACTGGCACATGCATCAGTCACAAAACTGTACAGAGAAAAATACCAAgtgagttatc ... ttacatatagGTCGCAGGAAAAGGAATTATCGGCATAAGTGTTTACACATTTTGGGCTTAT
EST: gi|29614528|gb|CB619541.1|CB619541
EST:     TGTTACTGGCACATGCATCAGTCACAAAACTGTACAGAGAAAAATACCAA                         GTCGCCAGGAAAAGGAATTATCGGCATAAGTGTTTACA
genomic: TGTTACTGGCACATGCATCAGTCACAAAACTGTACAGAGAAAAATACCAAgtgagttatc ... ttacatatagGTCGC-AGGAAAAGGAATTATCGGCATAAGTGTTTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcattgttcaattggccaaatctttatgtgttcataaaagagttttacatatagGTCGCAGGAAAAGGAATTATCGGCATAAGTGTTTACACATTTTGGGCTTATCCATTAACAAATTCTACTGTCGATTTAGAAGCAACAAAAAGATGTCAGG
                                  ataaaagagtttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttatcatgtattcagaattagtagtagcattgttcaattggccaaatctttatgtgttcataaaagagttttacatatagGTCGCAGGAAAAGGAATTATCGGCATAAGTGTTTACACATTTTGGGCTTATCCATTAACAAATTCTACTGTCGATTTAGAAGCAACAAAAAGATGTCAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG