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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCGCCTCCGCCTCGCCTCGCCGGCGCCGAAGCCCTCGCCCGCTCGTCGGCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCGgtgcgtgctccgtgatttatcctctcttgttctagctcttttacggcttcgcttttggtggttttttttggtgtaattttttttatcagccttcgccaactgttcccccccgtag

Basic information

species Oryza sativa
transcript LOC_Os03g11200.1
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|88325426|gb|CI675227.1|CI675227
EST:     GNGACCCCTCGGCACCTCATCCTCCCCGANGCGCGCGCCTCCGCTCGCCG                         GGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
genomic: GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCGgtgcgtgctc ... ccccccgtagGGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
EST: gi|58668992|gb|CK057678.1|CK057678
EST:     CGACCCCTCGGCACCTCATCCTCCCCGTACGCGCGCGCCTCCGCTCGCCG                         GGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
genomic: CGACCCCTCGGCACCTCATCCTCCCCG-ACGCGCGCGCCTCCGCTCGCCGgtgcgtgctc ... ccccccgtagGGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
EST: gi|88588607|gb|CI706436.1|CI706436
EST:     GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCG                         GGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
genomic: GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCGgtgcgtgctc ... ccccccgtagGGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
EST: gi|58673869|gb|CK062555.1|CK062555
EST:     GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCG                         GGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
genomic: GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCGgtgcgtgctc ... ccccccgtagGGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
EST: gi|88377815|gb|CI637949.1|CI637949
EST:     GCGAACCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCG                         GGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
genomic: GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCGgtgcgtgctc ... ccccccgtagGGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
EST: gi|58657364|gb|CK046044.1|CK046044
EST:     GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCG                         GGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
genomic: GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCGgtgcgtgctc ... ccccccgtagGGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
EST: gi|86902250|gb|CI302281.1|CI302281
EST:     GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCG                         GGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
genomic: GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCGgtgcgtgctc ... ccccccgtagGGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
EST: gi|88448452|gb|CI693832.1|CI693832
EST:     GCGACCCCTCGGNACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCG                         GGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
genomic: GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCGgtgcgtgctc ... ccccccgtagGGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC
EST: gi|88580649|gb|CI697592.1|CI697592
EST:     GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCG                         GGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGNCGCAATGGAGCAAGATC
genomic: GCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCGgtgcgtgctc ... ccccccgtagGGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATC

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: 68 (upstream exon), 73 (downstream exon)
Score: 21

CTCCGCCTCCGCCTCGCCTCGCCGGCGCCGAAGCCCTCGCCCGCTCGTCGGCGACCCCTCGGCACCTCATCCTCCCCGACGCGCGCGCCTCCGCTCGCCGgtgcgtgctc ... ccccccgtagGGGCGAGAGGGATTCGTCGGCCACGGTCCGCAGCCGCAATGGAGCAAGATCAGGGCGTTGCTGCCGCGGCGGCGTCGGAGAATCCAAGCGCCGGCCAGGG




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