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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGAGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatcttttaatctcaacagtcttcactgtggtttaatcttcaaatatctaggaagtgattgaatttatggcaaatatttagaatggcacagtgaaagc...

Basic information

species Oryza sativa
transcript LOC_Os05g43560.1
intron # 17
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|87027882|gb|CI276238.1|CI276238
EST:     AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|88261850|gb|CI365426.1|CI365426
EST:     AG-AAATGATAGATACCACATACACTGCAAATATTAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|58690350|gb|CK079037.1|CK079037
EST:     AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCAGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|88221933|gb|CI221889.1|CI221889
EST:     AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|86260924|gb|CI066599.1|CI066599
EST:     AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|88830844|gb|CI079278.1|CI079278
EST:     AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|88830954|gb|CI080378.1|CI080378
EST:     AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|33683327|gb|CF311566.1|CF311566
EST:     AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|88247112|gb|CI246961.1|CI246961
EST:     AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|88908200|gb|CI090795.1|CI090795
EST:     AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|89179789|gb|CI044068.1|CI044068
EST:     ATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: ATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
EST: gi|29633653|gb|CB638662.1|CB638662
EST:     AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAG                         AATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA
genomic: AGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCA

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: 65 (upstream exon), 44 (downstream exon)
Score: 7

GTGGAGAAAATGATAGATACCACATACACTGCAAATATGAAATCAATGATGCAGgtaatctttt ... tgagttgcagAATCGGTACCGCGCAGCATTTTGGACGATGAGGAAGAATGCATCTCGATCAAAAGCTCAAAAACACCAGTGAGGTGGAGATACTCTGTTTGGAACGGTTG




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