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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAGTACGTCGACGACGCATTCGACGGCCCGCCCATCCTACCTGCCGACCCCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAGgcaaatctcttcatgttgttgcatcattgcgttcatgtaagctctgaacatttacaggttcttgcgtttgctgatgatcagtgtgctactactgttcgatcgaacacctgcag

Basic information

species Oryza sativa
transcript LOC_Os01g72150.1
intron # 1
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|55433965|gb|CV730099.1|CV730099
EST:     CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAG                         TGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTGAGGAGCAGAAG
genomic: CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAGgcaaatctct ... acacctgcagTGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTGAGGAGCAGAAG
EST: gi|88762073|gb|CI771629.1|CI771629
EST:     CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAG                         TGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTGAGGAGCAGA
genomic: CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAGgcaaatctct ... acacctgcagTGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTGAGGAGCAGA
EST: gi|88732444|gb|CI755621.1|CI755621
EST:     CCTATGAACGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAG                         TGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTGAGGAGCAGAAG
genomic: CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAGgcaaatctct ... acacctgcagTGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTGAGGAGCAGAAG
EST: gi|88740513|gb|CI764021.1|CI764021
EST:     CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAG                         TGCACGTTGCCGTTGTTGCTGGCCCTG
genomic: CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAGgcaaatctct ... acacctgcagTGCACGTTGCCGTTGTTGCTGGCCCTG
EST: gi|88736177|gb|CI759685.1|CI759685
EST:     CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAG                         TGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTG
genomic: CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAGgcaaatctct ... acacctgcagTGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTG
EST: gi|112786711|gb|EE591298.1|EE591298
EST:     CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAG                         TGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTGAGGAGCAGAAG
genomic: CCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAGgcaaatctct ... acacctgcagTGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTGAGGAGCAGAAG

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: 28 (upstream exon), 48 (downstream exon)
Score: 1

CGAGTACGTCGACGACGCATTCGACGGCCCGCCCATCCTACCTGCCGACCCCTATGACCGCGCCACGGCTCGTTTCTGGGCTCAATTCATCGATCACAAGgcaaatctct ... acacctgcagTGCACGTTGCCGTTGTTGCTGGCCCTGTGGCTGGACGGTGAGGAGCAGAAGGGGTTTCTGAAGGAGACGAAGGAGAACCTGTCGCTACTGGAGGCACAGC




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