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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCGTGGAGTACATGCCGTTCCTGATGTCGCTGGCCGTGTTCCTGTGCGGCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcgtgccaccggccgccggcgcccgcgtgcagctcaaacagttgattgatttgattggtgttcgatcgtttttgtttggacag

Basic information

species Oryza sativa
transcript LOC_Os05g35140.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g35140.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G153358_T01 (Zea mays), 5'ss of exon 5
GAGCGTGGAGTACATGCCGTTCCTGATGTCGCTGGCCGTGTTCCTGTGCGGCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgt-cgtgccaccg----gccgccggcgcc----cgcgtgcagctcaaacagttgattgatttgattggtgttcgatcgtttttgtttggacag-
||||||||||||||||||||||||| ||||||||||||||||||||||||||||||| |||||| |||||||| |||||||||| |||||||||||| |||| |||   |  | ||       || ||  ||  |    |   ||||   |   ||| |  | |      ||  | |     ||| | || |  | |   
GAGCGTGGAGTACATGCCGTTCCTGCTGTCGCTGGCCGTGTTCCTGTGCGGCACGTCCTGGTTCGTCTACGGCCTGCTCGGCCGGGACCCCTTCGTCGCGgtacgtaagcacgtcatatatatgcagctagcagctaggcatatgcaaagcttgcagctactagtagctgttcctttctaggcgtgtctgatgcgtcgtc
















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|88217800|gb|CI217649.1|CI217649
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86504165|gb|CI146798.1|CI146798
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88219611|gb|CI219171.1|CI219171
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86540414|gb|CI180620.1|CI180620
EST:     GGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88215369|gb|CI215218.1|CI215218
EST:     ATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: ATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88217635|gb|CI217484.1|CI217484
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86260321|gb|CI066194.1|CI066194
EST:     GCACGTCGTGGTTTATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88220685|gb|CI220245.1|CI220245
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88218357|gb|CI218206.1|CI218206
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88222850|gb|CI220701.1|CI220701
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88848092|gb|CI086614.1|CI086614
EST:     GCACGTCGTGGTTAATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|89189369|gb|CI048908.1|CI048908
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86527227|gb|CI167433.1|CI167433
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|29662555|gb|CB658830.1|CB658830
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|29614686|gb|CB619699.1|CB619699
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88216262|gb|CI216111.1|CI216111
EST:     CCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: CCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86412605|gb|CI067010.1|CI067010
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|87023009|gb|CI280026.1|CI280026
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86536947|gb|CI177153.1|CI177153
EST:     TCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: TCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88472958|gb|CI410229.1|CI410229
EST:     TTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGGACGGGTGCGGGAGCTTTCTTGGCGCCGTGGCAGCTGGTGCTGTA
genomic: TTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGT-GCAGCTGGTGCTCTA
EST: gi|86528375|gb|CI168581.1|CI168581
EST:     GCACGTCGTGGTTCATTTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|7134938|gb|AU082748.1|AU082748
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86523618|gb|CI163824.1|CI163824
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88481127|gb|CI418398.1|CI418398
EST:     GCACGTCGTGGTTCATTTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|87027475|gb|CI272240.1|CI272240
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86524845|gb|CI165051.1|CI165051
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88830338|gb|CI076594.1|CI076594
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86527848|gb|CI168054.1|CI168054
EST:     ATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: ATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86529262|gb|CI169468.1|CI169468
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88220412|gb|CI219972.1|CI219972
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86534760|gb|CI174966.1|CI174966
EST:     GTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|88215199|gb|CI215048.1|CI215048
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|29629891|gb|CB634900.1|CB634900
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86260322|gb|CI066195.1|CI066195
EST:     GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86428006|gb|CI073103.1|CI073103
EST:     GCACGTCGTGGTTTATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: GCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
EST: gi|86428293|gb|CI074974.1|CI074974
EST:     CTTGCTCGGCCGCGACCCCTTCGTCACG                         ATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC
genomic: CTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTAC

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: 74 (upstream exon), 74 (downstream exon)
Score: 47

GAGCGTGGAGTACATGCCGTTCCTGATGTCGCTGGCCGTGTTCCTGTGCGGCACGTCGTGGTTCATCTACGGCTTGCTCGGCCGCGACCCCTTCGTCACGgtgcgtgtcg ... gtttggacagATTCCGAACGGGTGCGGGAGCTTTCTTGGCGCCGTGCAGCTGGTGCTCTACGCCATCTACCGCAACAACAAGGGCGCCGGCGGCGGCAGCGGCGGCAAGC




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