Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATACCATATTGGAAGTTTATGAGAAGCTTCAGTCAACCCTTTTCTGTTGGAATGCGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAGgtattatccaacagttatatttcatgttttgcgaaatggcattacaatggtaaagatatttctagctcgtgcttggtttttcataaagaatttgtttttcag

Basic information

species Oryza sativa
transcript LOC_Os01g48060.2
intron # 7
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|218503635|gb|FG969021.1|FG969021
EST:     GGAATGAGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAG                         GCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGACCCAATGTGGCATGG
genomic: GGAATGCGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAGgtattatcca ... tgtttttcagGCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGATCCAATGTGGCATGG
EST: gi|33677338|gb|CF305577.1|CF305577
EST:     GGAATGCGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAG                         GCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGATCCAATGTGGCATGG
genomic: GGAATGCGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAGgtattatcca ... tgtttttcagGCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGATCCAATGTGGCATGG
EST: gi|58672722|gb|CK061408.1|CK061408
EST:     GGAATGAGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAG                         GCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGACCCAATGTGGCATGG
genomic: GGAATGCGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAGgtattatcca ... tgtttttcagGCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGATCCAATGTGGCATGG
EST: gi|8857852|gb|AU095170.1|AU095170
EST:     GGAATGCGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAG                         GCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGATCCAATGTGGCATGG
genomic: GGAATGCGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAGgtattatcca ... tgtttttcagGCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGATCCAATGTGGCATGG
EST: gi|58659436|gb|CK048116.1|CK048116
EST:     GGAATGAGATTCAAATTGAGATATGAGAGTGAGGGTGCTTCTGAAAGAAG                         GCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGACCCAATGTGGCATGG
genomic: GGAATGCGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAGgtattatcca ... tgtttttcagGCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGATCCAATGTGGCATGG
EST: gi|58596807|gb|CK007335.1|CK007335
EST:     GCTTCTGAAAGAAG                         GCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGACCCAATGTGGCATGG
genomic: GCTTCTGAAAGAAGgtattatcca ... tgtttttcagGCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGATCCAATGTGGCATGG
EST: gi|58689818|gb|CK078505.1|CK078505
EST:     GGAATGAGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAG                         GCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGACCCAATGTGGCATGG
genomic: GGAATGCGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAGgtattatcca ... tgtttttcagGCGTACTGGAATAATAATTGGAAGCAGAGAGGCAGATCCAATGTGGCATGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTATACCATATTGGAAGTTTATGAGAAGCTTCAGTCAACCCTTTTCTGTTGGAATGCGATTCAAATTGAGATATGAGAGTGAGGATGCTTCTGAAAGAAGgtattatccaacagttatatttcatgttttgcgaaatggcattacaatggtaaagatatttctagctcgtgcttggtttttcataaagaatttgtttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG