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'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taatttatccatatatgagaagtatatcccacccattcagaattttatgaaacattaccttagttcatgctgaaattaattccatcaatgtatgacgcagGTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTCCCATCAGATCTTATCCTCCACTTCCTGCAAATAAGCCATACCCCAATA

Basic information

species Oryza sativa
transcript LOC_Os01g51290.1
intron # 3
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|86876092|gb|CI325591.1|CI325591
EST:     ACTATATGCACCAAGCCCAACGATCAGCCACAGAG                         GTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTC
genomic: ACTATATGCACCAAGCCCAACGATCAGCCACAGAGgtacattcag ... tatgacgcagGTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTC
EST: gi|86487913|gb|CI130546.1|CI130546
EST:     CAGCCACAGAG                         GTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTC
genomic: CAGCCACAGAGgtacattcag ... tatgacgcagGTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTC
EST: gi|89169847|gb|CI110206.1|CI110206
EST:     TAACGTACAGCAGGAACTATATGCACCAAGCCCAACGATCAGCCACAGAG                         GTCTTGCTATTCCTCCACTGCCAACAACTTCACCCCCAGTTTTCCCACCTC
genomic: TAACGTACAGCAGGAACTATATGCACCAAGCCCAACGATCAGCCACAGAGgtacattcag ... tatgacgcagGTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTC
EST: gi|396941635|gb|HO188292.1|HO188292
EST:     TAACATACAGCAGGAACTATATGCACCAAGCCCAACGATCAGCCACAGAG                         GTCTTGCTATTCCTCCACTTCCAACAACTTCATCCCCAGTTTTCCCACCTC
genomic: TAACGTACAGCAGGAACTATATGCACCAAGCCCAACGATCAGCCACAGAGgtacattcag ... tatgacgcagGTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTC
EST: gi|87009778|gb|CI310881.1|CI310881
EST:     TATGCACCAAGCCCAACGATCAGCCACAGAG                         GTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTC
genomic: TATGCACCAAGCCCAACGATCAGCCACAGAGgtacattcag ... tatgacgcagGTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTC
EST: gi|86423364|gb|CI060937.1|CI060937
EST:     TAACGTACAGCAGGAACTATATGCACCAAGCCCAACGATCAGCCACAGAG                         GTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTC
genomic: TAACGTACAGCAGGAACTATATGCACCAAGCCCAACGATCAGCCACAGAGgtacattcag ... tatgacgcagGTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgaaacattaccttagttcatgctgaaattaattccatcaatgtatgacgcagGTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTCCCATCAGATCTTATCCTCCACTTCCTGCAAATAAGCCATACCCCAATA
                            aattaat  putative branch site (score: 3)
                         tgaaattaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taatttatccatatatgagaagtatatcccacccattcagaattttatgaaacattaccttagttcatgctgaaattaattccatcaatgtatgacgcagGTCTTGCTATTCCTCCACTTCCAACAACTTCACCCCCAGTTTTCCCACCTCCCATCAGATCTTATCCTCCACTTCCTGCAAATAAGCCATACCCCAATA

- - - - - - - - - - - - - - - - ccattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcatgc