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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCCTAAATACCAAGAAATTGTCAATATACGATTAGGAGATGGCACAACTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacatatttgtttcacagtggcaataaataattaagatagcatgcattcttttaacatgttgccaattcattcgtgtggttatattgttattaaa...

Basic information

species Oryza sativa
transcript LOC_Os01g51380.1
intron # 4
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|88352648|gb|CI624587.1|CI624587
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAAGATCTGGTATTGACAACAAATACA-AACT
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACT
EST: gi|88724403|gb|CI747662.1|CI747662
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88433134|gb|CI569803.1|CI569803
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|58672899|gb|CK061585.1|CK061585
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88358211|gb|CI605136.1|CI605136
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88360936|gb|CI625242.1|CI625242
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|163927702|gb|EG710506.1|EG710506
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88317359|gb|CI628008.1|CI628008
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACA-CTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88345261|gb|CI627902.1|CI627902
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88397163|gb|CI593375.1|CI593375
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88371072|gb|CI597549.1|CI597549
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAAGTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88360978|gb|CI625284.1|CI625284
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTAAAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88356589|gb|CI626204.1|CI626204
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACA-AACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88724311|gb|CI747570.1|CI747570
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|88314360|gb|CI604844.1|CI604844
EST:     CTAGGCGTGGTCCAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAACGAACATCTGGTATTGACA
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACA
EST: gi|88388263|gb|CI627802.1|CI627802
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
EST: gi|66915737|gb|CX102585.1|CX102585
EST:     CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAG                         GTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC
genomic: CTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacat ... tcactggcagGTTTTCGAAGGAACATCTGGTATTGACAACAAATACACAACTGTACAATTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTCCTAAATACCAAGAAATTGTCAATATACGATTAGGAGATGGCACAACTAGGCGTGGTCAAGTGCTTGAAGTCGATGGGGAGAAAGCTGTTGTTCAGgtatgtacatatttgtttcacagtggcaataaataattaagatagcatgcattcttttaacatgttgccaattcattcgtgtggttatattgttattaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT