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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaactactgttcctatctcaaaactgtatgacattttctttagaactccgaatgctgaataaaagatatggatcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCATTTCGTGTTGTCTAGGGTTTAAATAAATTGCTCACGATGTATCTGTTTAT

Basic information

species Oryza sativa
transcript LOC_Os12g08830.2
intron # 4
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|88539844|gb|CI469838.1|CI469838
EST:     TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
EST: gi|88541089|gb|CI469182.1|CI469182
EST:     TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGGCTGAATCA
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATA-GCTGAATCA
EST: gi|27547203|gb|CA765413.2|CA765413
EST:     TGCAACTGCCGCTGGAAACAGGCCCTACATGTTCAATGTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
EST: gi|33673774|gb|CF302013.1|CF302013
EST:     TGCAACTGCCGCTGGAAACGGGCTCTACCTGTTCCATGTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
EST: gi|88533811|gb|CI460479.1|CI460479
EST:     TCCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATNTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
EST: gi|88995772|gb|CI037130.1|CI037130
EST:     TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
EST: gi|88541942|gb|CI471246.1|CI471246
EST:     TGCAACTCCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
EST: gi|88271042|gb|CI386897.1|CI386897
EST:     TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGGCCTGAAGCAAATAGCTGAATCAT
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
EST: gi|88839416|gb|CI005204.1|CI005204
EST:     TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
EST: gi|88965272|gb|CI009308.1|CI009308
EST:     TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
EST: gi|33666339|gb|CF297306.1|CF297306
EST:     TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATG                         GGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT
genomic: TGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCAT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 49 (upstream exon), 74 (downstream exon)
Score: 6

GGAAGAACTTACTACCAGTTTGAGCTGGAACCACCTCATATCTTCATCACTGCAACTGCCGCTGGAAACAGGCTCTACCTGTTCAATGTAACTGCAAATGgtaaaactac ... atcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCATTTCGTGTTGTCTAGGGTTTAAATAAATTGCTCACGATGTATCTGTTTAT




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgacattttctttagaactccgaatgctgaataaaagatatggatcgttgcagGGCTACAATGGAAGAGGAATTACAATGACCTGAAGCAAATAGCTGAATCATTTCGTGTTGTCTAGGGTTTAAATAAATTGCTCACGATGTATCTGTTTAT
                             tgaataaaagatat  TA-rich tract