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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGATAGCTCCCGCAGAAATGGCACACGTGATGACCTTGAAGATGGTGAACTTGGAGAAGATGGGGAGATTCATTAGTCATTCGTTTCTCCGCTGAGATTgtcagtactactgctccttgccatgttattagttaaataccgttttcttgttttgctcaagtagcgcatctgcttaagaatttggtagtgtcaatcactgttattagtgtacatgctctgagatttacttagtattttatactattttgcag

Basic information

species Oryza sativa
transcript LOC_Os01g34780.1
intron # 13
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|88955565|gb|CI006371.1|CI006371
EST:     CTTGGAGAAGATGGGGAGATTCATTAGTCATTCGTTTCTCCGCTGAGATT                         TATCACAATACAGTCCCCCCTCCTGTTTTGGACATATGAAATGGTGCATTT
genomic: CTTGGAGAAGATGGGGAGATTCATTAGTCATTCGTTTCTCCGCTGAGATTgtcagtacta ... tattttgcagTATCACAATACAGTCCCCCCTCCTGTTTTGGACATATGAAATGGTGCATTT
EST: gi|16579710|gb|BI813805.1|BI813805
EST:     AGATTCATTAGTCATTCGTTTCTCCGCTGAGATT                         TATCACAATACAGTCCCCCCTCCTGTTTTGGACATATGAAATGGTGCATTT
genomic: AGATTCATTAGTCATTCGTTTCTCCGCTGAGATTgtcagtacta ... tattttgcagTATCACAATACAGTCCCCCCTCCTGTTTTGGACATATGAAATGGTGCATTT
EST: gi|86835599|gb|CI348056.1|CI348056
EST:     GATGGGGAGATTCATTAGTCATTCGTTTCTCCGCTGAGATT                         TATCACAATACAGTCCCCCCTCCTGTTTTGGACATATGAAATGGTGCATTT
genomic: GATGGGGAGATTCATTAGTCATTCGTTTCTCCGCTGAGATTgtcagtacta ... tattttgcagTATCACAATACAGTCCCCCCTCCTGTTTTGGACATATGAAATGGTGCATTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGATAGCTCCCGCAGAAATGGCACACGTGATGACCTTGAAGATGGTGAACTTGGAGAAGATGGGGAGATTCATTAGTCATTCGTTTCTCCGCTGAGATTgtcagtactactgctccttgccatgttattagttaaataccgttttcttgttttgctcaagtagcgcatctgcttaagaatttggtagtgtcaatcactgttattagtgtacatgctctgagatttacttagtattttatactattttgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT