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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCTGAAGGATGCAAGTGGTCAAACAAACCAATCCAGCAGATTGGCCCATATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagtgttttctaatttgttcatgtaatgacatttggccgacgcataaaaagctaatataatagaggcacccctcatctgatagattgcttacaa...

Basic information

species Oryza sativa
transcript LOC_Os02g47410.3
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|86437401|gb|CI119123.1|CI119123
EST:     ATTGCAAACTCAAACTCTTTATCCATGAATCAAAG                         AGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
genomic: ATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|87039717|gb|CI194339.1|CI194339
EST:     AACTCTTTATCCATGAATCAAAG                         AGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
genomic: AACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|87038519|gb|CI193141.1|CI193141
EST:     ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAG                         AGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
genomic: ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|29638403|gb|CB643412.1|CB643412
EST:     ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAG                         AGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
genomic: ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|87041686|gb|CI196308.1|CI196308
EST:     ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAG                         AGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
genomic: ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|87040692|gb|CI195314.1|CI195314
EST:     CTCTTTATCCATGAATCAAAG                         AGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
genomic: CTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|58601341|gb|CK011869.1|CK011869
EST:     ATCCAAAGCCATGCTATTGCAAACTCAAACGCTGTATCCATGAATCAAAG                         AGGTGACCACCTGTTCCATGCATCAACTCTTACAGAGACTAGTGCCTCTAC
genomic: ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|87016346|gb|CI271757.1|CI271757
EST:     ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAG                         AGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGT-GTGCCTCTAC
genomic: ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|29622303|gb|CB627314.1|CB627314
EST:     ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAG                         AGGTGACCACCTGTTCCATGCATCAACTCTTACAGAGACTAGTGCCTCTAC
genomic: ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|87040709|gb|CI195331.1|CI195331
EST:     ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAG                         AGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
genomic: ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|218498653|gb|FG968593.1|FG968593
EST:     ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAG                         AGGTGACCACCTGTTCCATGCATCAACTCTTACAGAGACTAGTGCCTCTAC
genomic: ATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
EST: gi|87018950|gb|CI256835.1|CI256835
EST:     ATTGCAAACTCGAACTCTTTATCCATGAATCAAAG                         AGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC
genomic: ATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTAC

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: 73 (upstream exon), 65 (downstream exon)
Score: 26

ACCTGAAGGATGCAAGTGGTCAAACAAACCAATCCAGCAGATTGGCCCATATCCAAAGCCATGCTATTGCAAACTCAAACTCTTTATCCATGAATCAAAGgtacttaagt ... tttcctatagAGGTGACCGCCTGTTCCATGCATCAACTCTTACAGAGAGTAGTGCCTCTACAGGCCATGTGACCTATGATGGTTACCATAATGCAAACTATTCTCAGCTG




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