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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAAGCCAGCCCTTCATCTCATCTGGAGATCTGGTTCTACTCATCCAGGAAAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagttacatcaaccaatttttgttatttcagtacttctttcccattcttcttcttcttcttcaactcggagtcttctacggtgtatatctcttcca...

Basic information

species Oryza sativa
transcript LOC_Os01g71590.2
intron # 1
splice site 5'
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|88717951|gb|CI739463.1|CI739463
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
EST: gi|88362058|gb|CI607058.1|CI607058
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
EST: gi|88356752|gb|CI619238.1|CI619238
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATGTTCTGCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
EST: gi|33691042|gb|CF319281.1|CF319281
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
EST: gi|88695968|gb|CI739543.1|CI739543
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATGTTCTGCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
EST: gi|117243634|gb|CT843160.1|CT843160
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
EST: gi|88405905|gb|CI591300.1|CI591300
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATGTTCTGCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
EST: gi|88315686|gb|CI617159.1|CI617159
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCAGATCATTTTCTGCCCAGATGCTTTC
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCC-AGATGCTTTC
EST: gi|88719949|gb|CI741884.1|CI741884
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
EST: gi|88727250|gb|CI750905.1|CI750905
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATGTTCTGCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
EST: gi|569899|gb|D40748.1|D40748
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA
EST: gi|2309642|gb|C25797.1|C25797
EST:     AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCG                         ACAAACATATAGTGGTGAAAATTCCCGATCATGTTCTTCCAGATGCTTTCA
genomic: AAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagtta ... cttgttacagACAAACATATAGTGGTGAAAATTCCCGATCATTTTCTGCCAGATGCTTTCA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAAGCCAGCCCTTCATCTCATCTGGAGATCTGGTTCTACTCATCCAGGAAAGCCCCAATCTTTATCATAGCAAGGAGGTCATGTCGGAATCGGCCCTCGgtaatagttacatcaaccaatttttgttatttcagtacttctttcccattcttcttcttcttcttcaactcggagtcttctacggtgtatatctcttcca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG