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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttatatgatacatatatgtgtgttcagtgatgttgacaagctgcaacttgcaatgcttgttttgaaaattgaaccagaaagagcaaatgggttt...

Basic information

species Oryza sativa
transcript LOC_Os02g33080.1
intron # 2
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|426766|gb|D22837.1|D22837
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|4969136|gb|AU066040.1|AU066040
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTNAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|25800212|gb|CA756173.1|CA756173
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|27576202|gb|CA998896.1|CA998896
EST:     TTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: TTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|38476031|gb|CF960164.1|CF960164
EST:     TGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGGAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: TGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|58602261|gb|CK012789.1|CK012789
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|29671592|gb|CB667867.1|CB667867
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|33795740|gb|CF323739.1|CF323739
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
EST: gi|58679024|gb|CK067711.1|CK067711
EST:     GTTGATAAGAGAAGCTCATAAGAAAGGAGC-AACA-TGTCCTTGTTCAG                         GAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT
genomic: GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttat ... aatgctttagGAACTGTTTGAGGGGCAGTACTTCTGTCAAGCTCAAAGGTTGGACTTCTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGATAAGAGAAGCTCATAAGAAAGGAGCAAACATTGTCCTTGTTCAGgtatatttatatgatacatatatgtgtgttcagtgatgttgacaagctgcaacttgcaatgcttgttttgaaaattgaaccagaaagagcaaatgggttt

- - - AAGAGA
- - - -  AGAAGC
- - - - - - AGCTCA
- - - - - - - - -  AAGAAA
- - - - - - - - - - -  AAGGAG
- - - - - - - - - - - -  GGAGCA