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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtattcggtttactcttattctgtatgcttaaattaagatggctgtcattttctatcatcattgtcaaaggctagccaactctgccttgttaagagtacatggttattggggtctccattatgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAAATGATCAGTTGGTTCAGCCGTCGGCGGTTCTTCTTCCCTTAAATCAGAT

Basic information

species Oryza sativa
transcript LOC_Os02g50360.1
intron # 2
splice site 3'
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|29621716|gb|CB626727.1|CB626727
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88442914|gb|CI694326.1|CI694326
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88720294|gb|CI743593.1|CI743593
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88315050|gb|CI610109.1|CI610109
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCCCCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88367283|gb|CI564047.1|CI564047
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88312657|gb|CI587565.1|CI587565
EST:     CTTCCCTTGTGTGATGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTTGCACCTGATTTGTAAGATTTTGGAAAC
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATT-GCACC-GATT-GTAAGATTT-GGAAAC
EST: gi|88382727|gb|CI682617.1|CI682617
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88337091|gb|CI628177.1|CI628177
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88588080|gb|CI705873.1|CI705873
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88362169|gb|CI608560.1|CI608560
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88723449|gb|CI746959.1|CI746959
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88408745|gb|CI686255.1|CI686255
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88356217|gb|CI627665.1|CI627665
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88394194|gb|CI684867.1|CI684867
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88430110|gb|CI565123.1|CI565123
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88851911|gb|CI679469.1|CI679469
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88333583|gb|CI656655.1|CI656655
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88583163|gb|CI700628.1|CI700628
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88693611|gb|CI737186.1|CI737186
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|86903907|gb|CI302553.1|CI302553
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88405123|gb|CI685575.1|CI685575
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88352508|gb|CI654333.1|CI654333
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88426827|gb|CI584190.1|CI584190
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88328561|gb|CI676771.1|CI676771
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88582552|gb|CI699970.1|CI699970
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
EST: gi|88592670|gb|CI710791.1|CI710791
EST:     CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTA                         ATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA
genomic: CTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAA

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), 72 (downstream exon)
Score: 6

TTGGAGTCAGTTCCGGATCTTGTGAAGGCAATGTACATAAACGTTGAAAGCTTCCCTTGTGTGAGGCTGTTGAATCACTCTGGTCAAGTCGGTTGTTCTAgtgagtattc ... atgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAAATGATCAGTTGGTTCAGCCGTCGGCGGTTCTTCTTCCCTTAAATCAGAT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaactctgccttgttaagagtacatggttattggggtctccattatgtaatcagATCCTGGGCATGACAAGGTTATTGCACCGATTGTAAGATTTGGAAACAGAAATGATCAGTTGGTTCAGCCGTCGGCGGTTCTTCTTCCCTTAAATCAGAT
                                          attatgtaat  TA-rich tract