Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcgcatcttctatttctaagctaaatgaattttcatcccttcaactttgaatagctttggtaattgccttgtttcgtggtgttgcagAGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGGAAACGGAGCAGAACCAATGGAGCAGGATGAGATCTAGTCGAAGCTAAGA

Basic information

species Oryza sativa
transcript LOC_Os02g16880.1
intron # 6
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|86826976|gb|CI268844.1|CI268844
EST:     CAACTCAAGTGATGTGATTAGACCCAACTTATCTGTTCGTGAAGGCATCG                         AGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG
genomic: CAACTCAAGTGATGTGATTAGACCAAACTTATCTGTTCGTGAAGGCATCGgtatgcgcat ... ggtgttgcagAGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG
EST: gi|86416782|gb|CI030793.1|CI030793
EST:     CAACTCAAGTGATGTGATTAGACCAAACTTATCTGTTCGTGAAGGCATCG                         AGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG
genomic: CAACTCAAGTGATGTGATTAGACCAAACTTATCTGTTCGTGAAGGCATCGgtatgcgcat ... ggtgttgcagAGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG
EST: gi|86435202|gb|CI106435.1|CI106435
EST:     CAACTCAAGTGATGTGATTAGACCAAACTTATCTGTTCGTGAAGGCATCG                         AGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG
genomic: CAACTCAAGTGATGTGATTAGACCAAACTTATCTGTTCGTGAAGGCATCGgtatgcgcat ... ggtgttgcagAGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG
EST: gi|88219776|gb|CI219336.1|CI219336
EST:     CAACTCAAGTGATGTGATTAGACCAAACTTATCTGTTCGTGAAGGCATCG                         AGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG
genomic: CAACTCAAGTGATGTGATTAGACCAAACTTATCTGTTCGTGAAGGCATCGgtatgcgcat ... ggtgttgcagAGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG
EST: gi|163928279|gb|EG712571.1|EG712571
EST:     CAACTCAAGTGATGTGATTAGACCAAACTTATCTGTTCGTGAAGGCATCG                         AGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG
genomic: CAACTCAAGTGATGTGATTAGACCAAACTTATCTGTTCGTGAAGGCATCGgtatgcgcat ... ggtgttgcagAGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG
EST: gi|88474347|gb|CI411618.1|CI411618
EST:     ATCTGTTCGGGAAGGCATCG                         AGATTGTCGTTTCAGGAGGCATGTCGATGCCTCAAGTTCTATCCATAGTGG
genomic: ATCTGTTCGTGAAGGCATCGgtatgcgcat ... ggtgttgcagAGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatcccttcaactttgaatagctttggtaattgccttgtttcgtggtgttgcagAGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGGAAACGGAGCAGAACCAATGGAGCAGGATGAGATCTAGTCGAAGCTAAGA
             tttgaata  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcgcatcttctatttctaagctaaatgaattttcatcccttcaactttgaatagctttggtaattgccttgtttcgtggtgttgcagAGATTGTCGTTTCAGGAGGCATGTCAATGCCTCAAGTTCTATCCATAGTGGAAACGGAGCAGAACCAATGGAGCAGGATGAGATCTAGTCGAAGCTAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC