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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATAAGAGAGTTGATATTCCGTGAAATACTGGAATACCATCCACAATTGCTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAGgttttagcaatcatatctttggatataacatatatatgaccctttgcacatgcatgtaccagaaccaacctttgttttttgttgcacatgcatgttcttgtgcttttaattcaatcaatttctactgagaacaacacccatttttgttatgtag

Basic information

species Oryza sativa
transcript LOC_Os01g43910.1
intron # 7
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|42793952|gb|AB117851.1|AB117851
EST:     TTTCTATACCCAAG                         TGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTGAAGAAAATGGTGG
genomic: TTTCTATACCCAAGgttttagcaa ... tgttatgtagTGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTGAAGAAAATGGTGG
EST: gi|88402797|gb|CI613245.1|CI613245
EST:     CTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAG                         TGCTGTTGATCAATTTAGAAAGCAATTTGCCCA
genomic: CTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAGgttttagcaa ... tgttatgtagTGCTGTTGATCAATTTAGAAAGCAATTTGCCCA
EST: gi|44679557|gb|CR292991.1|CR292991
EST:     CTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAG                         TGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTGAAGAAAATGGTGG
genomic: CTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAGgttttagcaa ... tgttatgtagTGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTGAAGAAAATGGTGG
EST: gi|88402739|gb|CI613187.1|CI613187
EST:     CTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAG                         TGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTG
genomic: CTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAGgttttagcaa ... tgttatgtagTGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTG
EST: gi|58658976|gb|CK047656.1|CK047656
EST:     CTCAAAGACTATATCAATGGCACCGAGAGAACAANCTTTCTATACCCAAG                         TGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTGAAGAAAATGGTGG
genomic: CTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAGgttttagcaa ... tgttatgtagTGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTGAAGAAAATGGTGG
EST: gi|58683868|gb|CK072555.1|CK072555
EST:     CTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAG                         TGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTGAAGAAAATGGTGG
genomic: CTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAGgttttagcaa ... tgttatgtagTGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTGAAGAAAATGGTGG

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: 60 (upstream exon), 69 (downstream exon)
Score: 33

ATATAAGAGAGTTGATATTCCGTGAAATACTGGAATACCATCCACAATTGCTCAAAGACTATATCAATGGCACCGAGAGAACAACCTTTCTATACCCAAGgttttagcaa ... tgttatgtagTGCTGTTGATCAATTTAGAAAGCAATTTGCCCATCTTGAAGAAAATGGTGGAAATGGCCCGGTAATTCCAATGGATAGAAAGCACACTTCTCTTCCCAG




<











<


<