Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTGCGATCAGTTGAGCACGCAGATGAAAGATGCGACTATCGTTTACACCGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaacggagcataccgaatcacaattctcggtcgaatcatttggggattcggtcagtttcttacaactgctgttcttcag

Basic information

species Oryza sativa
transcript LOC_Os01g22660.2
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|86600645|gb|CI356402.1|CI356402
EST:     GCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: GCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|25807035|gb|CA762996.1|CA762996
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCACACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|33795591|gb|CF323665.1|CF323665
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTAATGGGTGGGCCGCCTTA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTA-TGG-TGGGCCGCCTTA
EST: gi|87006922|gb|CI275230.1|CI275230
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|86505009|gb|CI147642.1|CI147642
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|58603401|gb|CK013929.1|CK013929
EST:     GGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: -GATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|88535815|gb|CI465524.1|CI465524
EST:     CGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCCCCTTACA
genomic: CGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|218502135|gb|FG944929.1|FG944929
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGAACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|25807034|gb|CA762995.1|CA762995
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCACACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|58599956|gb|CK010484.1|CK010484
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|86501316|gb|CI143949.1|CI143949
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCT-ATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|3763492|gb|AU030244.1|AU030244
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|88319571|gb|CI518415.1|CI518415
EST:     TACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: TACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|86594348|gb|CI251220.1|CI251220
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|88222441|gb|CI222397.1|CI222397
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
EST: gi|86482361|gb|CI124994.1|CI124994
EST:     CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACG                         GTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA
genomic: CGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACA

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: 66 (upstream exon), 57 (downstream exon)
Score: 7

CTCTGCGATCAGTTGAGCACGCAGATGAAAGATGCGACTATCGTTTACACCGATCTGTTCCCTCTCAAGTACGACCTCATTGCGAACCGCACAAAATACGgtaagcaaac ... tgttcttcagGTTTCGATAAGCCGCTGATGACATGCTGCGGGTATGGTGGGCCGCCTTACAACTATAACATCACCATAGGCTGCCAGGACAAGAATGCCTCCTGCGACGA




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