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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAACTGCTGTCAAAGGTGGGAGTGGCAAAGTCCTGGACAGTGGCCCCAACGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtacttgcctgcaattatatgaaaccaataggatcagatatcgctatattcatgcttgtgaaacaagaaatggtcttattgttttgactttttccaaaatttcag

Basic information

species Oryza sativa
transcript LOC_Os01g37910.1
intron # 3
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|58610712|gb|CK038424.1|CK038424
EST:     CGATCATATTTTCATTTTTTACAGTGACCAGGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|33799061|gb|CF325390.1|CF325390
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|58688754|gb|CK077441.1|CK077441
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|58607687|gb|CK035720.1|CK035720
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|58691139|gb|CK079826.1|CK079826
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|4715544|gb|AU056660.1|AU056660
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|58692937|gb|CK081624.1|CK081624
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|58688098|gb|CK076785.1|CK076785
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|58691202|gb|CK079889.1|CK079889
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|58692544|gb|CK081231.1|CK081231
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|163923567|gb|EG713308.1|EG713308
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|58690742|gb|CK079429.1|CK079429
EST:     CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: CGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
EST: gi|58591094|gb|CF989402.1|CF989402
EST:     GGGGGTCCTGGTGTCCTTG                         GGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA
genomic: GGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGA

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), 73 (downstream exon)
Score: 109

AAAACTGCTGTCAAAGGTGGGAGTGGCAAAGTCCTGGACAGTGGCCCCAACGATCATATTTTCATTTTTTACAGTGACCATGGGGGTCCTGGTGTCCTTGgtgagtactt ... aaaatttcagGGATGCCAACCTATCCATACCTCTACGGTGATGATCTTGTAGATGTTCTGAAGAAGAAGCATGCTGCTGGGACGTACAAAAGCCTG




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