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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCCTCGTGAAGAATCTCTACCTCTCCTGCGACCCCTACATGCGCGGCCGGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcctcctccccttcgcctgctctccgttcaatcagaggtgcatttcaccctctacacggagaattgctttactggttattgaaggttccatttgtgtgaag

Basic information

species Oryza sativa
transcript LOC_Os01g66720.1
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|87012588|gb|CI307336.1|CI307336
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
EST: gi|88664300|gb|CI674646.1|CI674646
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
EST: gi|95100951|gb|CI692675.1|CI692675
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
EST: gi|12405296|gb|AU166897.1|AU166897
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
EST: gi|88664543|gb|CI699225.1|CI699225
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
EST: gi|88584559|gb|CI702121.1|CI702121
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGA
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGA
EST: gi|88453585|gb|CI681264.1|CI681264
EST:     GATGCGGGACTTCCACGGATCCCTACATCCCGCCGTTCAACCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
genomic: GATGCGGGACTTCCACGGATCC-TACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
EST: gi|88664345|gb|CI687666.1|CI687666
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
EST: gi|88453612|gb|CI681916.1|CI681916
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGG
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGC-TTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGG
EST: gi|88584560|gb|CI702122.1|CI702122
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGAG
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAG
EST: gi|88903759|gb|CI711461.1|CI711461
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCA
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCA
EST: gi|32948295|gb|BP184867.1|BP184867
EST:     GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCC                         GTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA
genomic: GGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGA

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: 53 (upstream exon), 74 (downstream exon)
Score: 5

GGTCCTCGTGAAGAATCTCTACCTCTCCTGCGACCCCTACATGCGCGGCCGGATGCGGGACTTCCACGGATCCTACATCCCGCCGTTCAAGCCCGGATCCgtaggtttcc ... ttgtgtgaagGTTATTGAAGGGCTTGGAGTGGCGAGAGTGGTGGATTCCACCCATCCGGGATTCAGCGCGGGCGACATTGTCTCCGGGATGACTGGTTGGGAGGAATACA




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