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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAGgtcagcattttacgttgttaatgactctttgagactttatattggcattgccattaagtatttcttcacttctttgcag

Basic information

species Oryza sativa
transcript LOC_Os10g40780.1
intron # 42
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|58679307|gb|CK067994.1|CK067994
EST:     TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAG                         ATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGAAGAAAAGAAA
genomic: TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAGgtcagcattt ... ttctttgcagATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGAAGAAAAGAAA
EST: gi|29616067|gb|CB621079.1|CB621079
EST:     TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAG                         ATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGAAGAAAAGAAA
genomic: TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAGgtcagcattt ... ttctttgcagATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGAAGAAAAGAAA
EST: gi|58672311|gb|CK060997.1|CK060997
EST:     TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAG                         ATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGA
genomic: TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAGgtcagcattt ... ttctttgcagATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGA
EST: gi|58656729|gb|CK045409.1|CK045409
EST:     TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAG                         ATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGAAGAAAAGAAA
genomic: TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAGgtcagcattt ... ttctttgcagATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGAAGAAAAGAAA
EST: gi|27547144|gb|CA765202.2|CA765202
EST:     GGAAGCCTTTTTAATAAG                         ATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGAAGAAAAGAAA
genomic: GGAAGCCTTTTTAATAAGgtcagcattt ... ttctttgcagATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGAAGAAAAGAAA
EST: gi|29674318|gb|CB670593.1|CB670593
EST:     TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAG                         ATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGAAGAAAAGAAA
genomic: TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAGgtcagcattt ... ttctttgcagATTCTTTCTGTTATAGTTAGGATTATTCAAAGAGATGCTGAAGAAAAGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACTCTTCTGTGGATATTGGACCGAGTAAAGGAAGCCTTTTTAATAAGgtcagcattttacgttgttaatgactctttgagactttatattggcattgccattaagtatttcttcacttctttgcag

- - - - - - - - - - - - - - AAGGAA