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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctttgtctctctgccctcctccatttttgacttatagttcaggactgtatttgcttgcttttttgcgccaacagccagatggttatagatttaattgagatgcgtggtgctcaaacatggcttcctttttacattatttagcag

Basic information

species Oryza sativa
transcript LOC_Os03g63020.3
intron # 16
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|29613120|gb|CB618133.1|CB618133
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCGTCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|86870386|gb|CI319492.1|CI319492
EST:     CTGTGCAGTCAG                         GTTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: CTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|29644979|gb|CB649986.1|CB649986
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|24468848|gb|CA305797.1|CA305797
EST:     ATTTGAAAATCCTCCTGTGCAGTCAGCAG                       
genomic: ATTTGAAAATCCTCCTGTGCAGT---CAGgtccgttctt ... tatttagc
EST: gi|86868376|gb|CI321678.1|CI321678
EST:     AAATCCTCCGGTCCAGTCAG                         GGTTTT-GCCTCTCGTTGCATCAGACCGCCCAATGGGCGATGTTCCAGCCA
genomic: AAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|88835185|gb|CI370488.1|CI370488
EST:     GCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|89167683|gb|CI018289.1|CI018289
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|29663527|gb|CB659802.1|CB659802
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|34996388|gb|CF569133.1|CF569133
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCA
EST: gi|29666009|gb|CB662284.1|CB662284
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGCAG                       
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGT---CAGgtccgttctt ... tatttagc
EST: gi|29666008|gb|CB662283.1|CB662283
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGCAG                       
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGT---CAGgtccgttctt ... tatttagc
EST: gi|29638287|gb|CB643296.1|CB643296
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|29656192|gb|CB652467.1|CB652467
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         C
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcag-
EST: gi|29656192|gb|CB652467.1|CB652467
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         C
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcag-
EST: gi|29656192|gb|CB652467.1|CB652467
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         C
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcag-
EST: gi|29613155|gb|CB618168.1|CB618168
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTTGTTGCGTCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|86886525|gb|CI322757.1|CI322757
EST:     GTACCCA-GATTT-AAAATCCTCCTCTCCAGTCAG                         GNTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|15858543|gb|BI811355.1|BI811355
EST:     TCCTCCTGTGCAGTCA-                         GGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: TCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|33801021|gb|CF326384.1|CF326384
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|29633044|gb|CB638053.1|CB638053
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|33381337|gb|CF196680.1|CF196680
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCATCANNNNGGCCAATGGGCGATGTTCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCA
EST: gi|218497584|gb|FG955131.1|FG955131
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCGTCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|86435343|gb|CI106576.1|CI106576
EST:     AAATCCTCCTGTGCAGTCGG                         GGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: AAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|86896081|gb|CI330061.1|CI330061
EST:     TTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGCAG                       
genomic: TTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGT---CAGgtccgttctt ... tatttagc
EST: gi|86863868|gb|CI332862.1|CI332862
EST:     CAGGATTTGAAAATCCTCCTGTGCAGTCAGCAG                       
genomic: CAGGATTTGAAAATCCTCCTGTGCAGT---CAGgtccgttctt ... tatttagc
EST: gi|29613395|gb|CB618408.1|CB618408
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCGTCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|29628841|gb|CB633852.1|CB633852
EST:     GAAATTTTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCGTCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
EST: gi|8856640|gb|AU093958.1|AU093958
EST:     GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAG                         GGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA
genomic: GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCA

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: 46 (upstream exon), 61 (downstream exon)
Score: 25

GAAATTCTGCTGTACCCAGGATTTGAAAATCCTCCTGTGCAGTCAGgtccgttctt ... tatttagcagGGTTTTGGCCTCTCGTTGCATCAGACCGGCCAATGGGCGATGTTCCAGCCATGTCATCCTGGCCACAGGCATATGTGGTTGACGG




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