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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggatttaatctacaatattcaattgttgtgctcttcgcattctataccatataacaacatgttgcatggcctttctttgccataaacaatggacta...

Basic information

species Oryza sativa
transcript LOC_Os01g71300.2
intron # 2
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|33793936|gb|CF322856.1|CF322856
EST:     GAGG-AGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88667209|gb|CI715367.1|CI715367
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|89171382|gb|CI720441.1|CI720441
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88973956|gb|CI718364.1|CI718364
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88672977|gb|CI727092.1|CI727092
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88675003|gb|CI729116.1|CI729116
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|29616411|gb|CB621423.1|CB621423
EST:     TAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: TAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88594517|gb|CI714475.1|CI714475
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88674163|gb|CI728276.1|CI728276
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88676307|gb|CI730420.1|CI730420
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88905121|gb|CI712420.1|CI712420
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|89172489|gb|CI721548.1|CI721548
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|89172386|gb|CI721445.1|CI721445
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88669850|gb|CI723966.1|CI723966
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88594817|gb|CI714775.1|CI714775
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88676329|gb|CI730442.1|CI730442
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATGGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88674672|gb|CI728785.1|CI728785
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88667436|gb|CI722175.1|CI722175
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88595192|gb|CI715348.1|CI715348
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88673403|gb|CI727516.1|CI727516
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88594033|gb|CI713987.1|CI713987
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88673631|gb|CI727744.1|CI727744
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88593847|gb|CI713801.1|CI713801
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATNTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88670559|gb|CI724675.1|CI724675
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88954490|gb|CI718469.1|CI718469
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88675254|gb|CI727369.1|CI727369
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88672556|gb|CI726672.1|CI726672
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88675704|gb|CI729817.1|CI729817
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|88675991|gb|CI730104.1|CI730104
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|33793279|gb|CF322520.1|CF322520
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
EST: gi|29670940|gb|CB667215.1|CB667215
EST:     GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTG                         GTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA
genomic: GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggattt ... caatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGGCTTAATATAGAGGGAGAGGCAGACAGTTGGGATTTTGGTGTTGgtaaggatttaatctacaatattcaattgttgtgctcttcgcattctataccatataacaacatgttgcatggcctttctttgccataaacaatggacta

- - - - - - - - - GAGAGG