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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATTTCCAGAACACTCAAGGTCTCATCTTTGTTGTTGATAGCAACGACAGAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttgtttaaggatcatgttcatgtttctggcttaacctgttacatggataactttgttctgtcatataagatgtatgctgaacatgccttttgg...

Basic information

species Oryza sativa
transcript LOC_Os01g16030.3
intron # 3
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|88341576|gb|CI641328.1|CI641328
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGAGGG
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGG
EST: gi|86870888|gb|CI326714.1|CI326714
EST:     ATCGTGT-GTTGAGCCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGA-GGATGCGTTTGTTGCTGGTTTTTGCTAACAAGCAAGATCT
genomic: ATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGATGCG-GTGTTGCTGGTTTTTGCTAACAAGCAAGATCT
EST: gi|86526009|gb|CI166215.1|CI166215
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGAGGGATGCGGTGTTGCTGGTTTTTGCTAACAAGCAAGATCTT
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGATGCGGTGTTGCTGGTTTTTGCTAACAAGCAAGATCTT
EST: gi|66915825|gb|CX102673.1|CX102673
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAAGATGCTTAATGAG                         GATGAGTTGAGGGATGCGGTGTTGCTGGTTTTTGCTAACAAGCAAGATCTT
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGATGCGGTGTTGCTGGTTTTTGCTAACAAGCAAGATCTT
EST: gi|88305327|gb|CI653053.1|CI653053
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGAGGGATGCGG
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGATGCGG
EST: gi|396941528|gb|HO188737.1|HO188737
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGAGGGATGCGGTGTTGCTGGTTTTTGCTAACAAGCAAGATCTT
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGATGCGGTGTTGCTGGTTTTTGCTAACAAGCAAGATCTT
EST: gi|163929270|gb|EG711031.1|EG711031
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGAGGGATGCGGTGTTGCTGGTTTTTGCTAACAAGCAAGATCTT
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGATGCGGTGTTGCTGGTTTTTGCTAACAAGCAAGATCTT
EST: gi|88357962|gb|CI650698.1|CI650698
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGAGGGATGCGGTGT
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGATGCGGTGT
EST: gi|38476217|gb|CF960350.1|CF960350
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGAGGGATGCGGTGTTGCTGGTTTTTGCTAACAAGCAAGATCTT
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGATGCGGTGTTGCTGGTTTTTGCTAACAAGCAAGATCTT
EST: gi|88349175|gb|CI678148.1|CI678148
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGAGGGA
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGA
EST: gi|88369043|gb|CI677620.1|CI677620
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGAGGGATGCGGTG
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGATGCGGTG
EST: gi|88454148|gb|CI693823.1|CI693823
EST:     GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAG                         GATGAGTTGAGGGATGCGGTG
genomic: GAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttg ... gcatttgcagGATGAGTTGAGGGATGCGGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTATTTCCAGAACACTCAAGGTCTCATCTTTGTTGTTGATAGCAACGACAGAGATCGTGTGGTTGAGGCAAGGGATGAACTCCACAGGATGCTTAATGAGgtaaactttgtttaaggatcatgttcatgtttctggcttaacctgttacatggataactttgttctgtcatataagatgtatgctgaacatgccttttgg

- - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG