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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgttgagtatgtggtcttggagacttggacccttttgcacaacgccatgatcagctgtcttgcatgtgttctatcatcgtttcttccttcatgctgcagGGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCCTTTTCTAGTCGGGCTACAAATTTTCAGCAG

Basic information

species Oryza sativa
transcript LOC_Os11g12240.1
intron # 1
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|88435277|gb|CI581997.1|CI581997
EST:     CTCCTCCTCCTCCGTCAGTCTGTCGTCGAACTCCATTGCGAGCTCACAAG                         GGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCC
genomic: CTCCTCCTCCTCCGTCAGTCTGTCGTCGAACTCCATTGCGAGCTCACAAGgtgcgtaaat ... catgctgcagGGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCC
EST: gi|88310264|gb|CI659054.1|CI659054
EST:     CTCCTCCTCCTCCGTCAGTCTGTCGTCGAACTCCATTGCGAGCTCACAAG                         GGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCC
genomic: CTCCTCCTCCTCCGTCAGTCTGTCGTCGAACTCCATTGCGAGCTCACAAGgtgcgtaaat ... catgctgcagGGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCC
EST: gi|88761210|gb|CI770766.1|CI770766
EST:     CTCCTCCTCCTCCGTCAGTCTGTCGTCGAACTCCATTGCGAGCTCACAAG                         GGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCC
genomic: CTCCTCCTCCTCCGTCAGTCTGTCGTCGAACTCCATTGCGAGCTCACAAGgtgcgtaaat ... catgctgcagGGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCC
EST: gi|88403576|gb|CI575460.1|CI575460
EST:     CTCCTCCTCCTCCGTCAGTCTGTCGTCGAACTCCATTGCGAGCTCACAAG                         GGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCC
genomic: CTCCTCCTCCTCCGTCAGTCTGTCGTCGAACTCCATTGCGAGCTCACAAGgtgcgtaaat ... catgctgcagGGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatgatcagctgtcttgcatgtgttctatcatcgtttcttccttcatgctgcagGGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCCTTTTCTAGTCGGGCTACAAATTTTCAGCAG
                        ttctatcatcgtttct  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgttgagtatgtggtcttggagacttggacccttttgcacaacgccatgatcagctgtcttgcatgtgttctatcatcgtttcttccttcatgctgcagGGTTCAGCACACCAACCACCAACCGTTGGGCTCGAGTTCTACCAACCTCCCTTTTCTAGTCGGGCTACAAATTTTCAGCAG

ttgttga
- - - -gtatgtg
- - - - - - - - - - - - - tggaccc
- - - - - - - - - - - - - - - - -ttttgca
- - - - - - - - - - - - - - - - - - - - - - gccatga
- - - - - - - - - - - - - - - - - - - - - - - - - - cagctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatgt