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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGAATTTCGTCTCCTCGCCCGCCGCTTGCGCCGATCCCCATCCTGCGAGCAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatccctccctacccacacctcatcaggtattctgcgttatccctcaaaaagtttgggggttcaaccgaaacagggttagatctgcctctgccca...

Basic information

species Oryza sativa
transcript LOC_Os05g26914.1
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|88393236|gb|CI616720.1|CI616720
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|58680824|gb|CK069511.1|CK069511
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|58662397|gb|CK051077.1|CK051077
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|58685204|gb|CK073891.1|CK073891
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|58612520|gb|CK040232.1|CK040232
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|58673557|gb|CK062243.1|CK062243
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|88398718|gb|CI598683.1|CI598683
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|29685207|gb|CB681482.1|CB681482
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|58608887|gb|CK036920.1|CK036920
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|58692323|gb|CK081010.1|CK081010
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|29620923|gb|CB625934.1|CB625934
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|88420214|gb|CI621483.1|CI621483
EST:     CAGAGGTGGCGCCCGGCGTACTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|88451449|gb|CI565502.1|CI565502
EST:     CAGAGGTGGCGCCCGGCGTC-TCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTT-AATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|88692282|gb|CI735857.1|CI735857
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|29680449|gb|CB676724.1|CB676724
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|58605038|gb|CK033071.1|CK033071
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCAGGGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|29681007|gb|CB677282.1|CB677282
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|29680374|gb|CB676649.1|CB676649
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
EST: gi|29635402|gb|CB640411.1|CB640411
EST:     CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCG                         CTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG
genomic: CAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATG

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), 52 (downstream exon)
Score: 41

TCGAATTTCGTCTCCTCGCCCGCCGCTTGCGCCGATCCCCATCCTGCGAGCAGAGGTGGCGCCCGGCGTCCTCCTTCTTCCACCGCATCGTCGCTCGCCGgtgagcatcc ... gaaatggcagCTAGTATATTGAAGGTTGAAGCTTTGTGGGTATCCAGCAAGTATTTCAATGGCGTTGCTACAGTTTGGAGGTACCTTGGCCCCCAAACTTGGGGAAAAAC




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