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

gtaacaactaatctcaatatctcatagaggagatacagcatctgagtttccacaggactaaatactttctgatacagCATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGAAAGGCTCACCATCACCATCACCATCTTCAAAAATCATAGCACACAGATC

Basic information

species Oryza sativa
transcript LOC_Os03g18370.1
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|117246185|gb|CT862605.1|CT862605
EST:     AGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAG                         CATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGA
genomic: AGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAGgtaacaacta ... tctgatacagCATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGA
EST: gi|88433062|gb|CI569731.1|CI569731
EST:     AGTAAACCAAGGTGCAACAGCTCCTCTACCACTTGAACAATCTCCATCAG                         CATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGTGTATCCCCAGCGA
genomic: AGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAGgtaacaacta ... tctgatacagCATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGA
EST: gi|88385734|gb|CI566596.1|CI566596
EST:     AGTAAAC-AAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAG                         CATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCAGCGA
genomic: AGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAGgtaacaacta ... tctgatacagCATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGA
EST: gi|88311304|gb|CI570378.1|CI570378
EST:     AGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAG                         CATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGA
genomic: AGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAGgtaacaacta ... tctgatacagCATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGA
EST: gi|88341081|gb|CI638637.1|CI638637
EST:     AGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAG                         CATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGA
genomic: AGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAGgtaacaacta ... tctgatacagCATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGA
EST: gi|88387528|gb|CI583046.1|CI583046
EST:     AGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAG                         CATCAGGACCGGTGTCTTCTCCA
genomic: AGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAGgtaacaacta ... tctgatacagCATCAGGACCGGTGTCTTCTCCA

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: 47 (upstream exon), 59 (downstream exon)
Score: 7

GAACGTTAGAAGACTTCTGCAGACTGGTGGAGTAAACCAAGGTGCACCAGCTCCTCTACCACTTGAACAATCTCCATCAGgtaacaacta ... tctgatacagCATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGAAAGGCTCACCATCACCATCACCATCTTCAAAAATCATAGCACACAGATC




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catagaggagatacagcatctgagtttccacaggactaaatactttctgatacagCATCAGGACCGGTGTCTTCTCCATCACCCTCGCCATGGGTATCCCCACCGAAAGGCTCACCATCACCATCACCATCTTCAAAAATCATAGCACACAGATC
                                        tactttct  CT-rich tract
                                    taaatacttt  TA-rich tract