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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTTGTCTGGTTGGGTGGATGATGTCCGTAATTTCATGCACACTATAAAGAGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgatgtgacatttttgtgcaactttatttttttttcttacaagattctataggtggataagctcgtatgcctttattctttggttgttttgcta...

Basic information

species Oryza sativa
transcript LOC_Os05g43480.1
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|29675578|gb|CB671853.1|CB671853
EST:     AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAG                         AAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
genomic: AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
EST: gi|87016218|gb|CI271629.1|CI271629
EST:     AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAG                         AAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
genomic: AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
EST: gi|86858242|gb|CI271127.1|CI271127
EST:     AGACGCCGTCTACCAAATACAGGCACGCCTCAAGGTAGTGACACAATGAG                         AAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
genomic: AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
EST: gi|86482455|gb|CI125088.1|CI125088
EST:     AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAG                         AAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
genomic: AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
EST: gi|88224058|gb|CI223907.1|CI223907
EST:     AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAG                         AAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
genomic: AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
EST: gi|86493022|gb|CI135655.1|CI135655
EST:     AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAG                         AAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
genomic: AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
EST: gi|66924296|gb|CX111144.1|CX111144
EST:     AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAG                         AAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
genomic: AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
EST: gi|87014047|gb|CI273237.1|CI273237
EST:     AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAG                         AAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
genomic: AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
EST: gi|16754303|gb|BM038682.1|BM038682
EST:     AGACGCCGTCTAC-AAATACAGGCACGCCTCAAGATAGTGACACAATGAG                         AAGAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAG
genomic: AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAA-AGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAG
EST: gi|109713069|gb|CI105677.1|CI105677
EST:     CAAGATAGTGACACAATGAG                         AAAGGAGCTGATAAGCGAATCTGGAAGAATA-TTAGGTCAAAAATTCCAGA
genomic: CAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA
EST: gi|88270288|gb|CI385546.1|CI385546
EST:     AGACGCCCTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAG                         AAAGGAGCTGATAATCGAATCTGGAAGAATATTTAGCTCAAAAATTCCAGA
genomic: AGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGA

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: 75 (upstream exon), 75 (downstream exon)
Score: 33

ACTTGTCTGGTTGGGTGGATGATGTCCGTAATTTCATGCACACTATAAAGAGACGCCGTCTACAAAATACAGGCACGCCTCAAGATAGTGACACAATGAGgtactttgat ... ggcaatgcagAAAGGAGCTGATAAGCGAATCTGGAAGAATATTTAGGTCAAAAATTCCAGAATCGCTGAGGGAGCATCTCATTCAAGCCCTGCGGTCATATTACCAGGAC




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