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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATTGGGCTAAAAATGGTGTCCACATAGGGAGTGGGAGAAAATATAGGGATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctccaccctggtgagcgccatgtacttgtccctgtcgtcatttccatgctcagagcctcagttatgttatttcttggtcaattctgtagttata...

Basic information

species Oryza sativa
transcript LOC_Os04g09860.3
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g09860.3 (Oryza sativa), 5'ss of exon 20
lower sequence: GRMZM2G101250_T02 (Zea mays), 5'ss of exon 19
AGATTGGGCTAAAAATGGTGTCCACATAGGGAGTGGGAGAAAATATAGGGATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctccaccctggtgagcgccatgtacttgtccctgtcgtcatttccatgctcagagcctcagttatgttatttcttgg--tcaat-tctgtagttata----
|||||||  |||||||||||||||||| |||||||| |||||||||| |||||| |||||||||||||| || | |||||| ||||||||   |||||||||    ||    |||  |  | |  || ||  ||||    |    |||    |  ||| |   |     | ||| | || |    ||  | | |     ||||    
AGATTGGATTAAAAATGGTGTCCACATCGGGAGTGGCAGAAAATATAAGGATTCCTATTTTCTTCAGGCGCAAGTAATGTGCTACTACAACGTATAACAGgtg---ctttctccttatctgtgttatataaatgtc---ataaatattcatgtaatca-aatattgaccaagttgtatcctaacatctgtgttttccagtataaaga
















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|88508678|gb|CI436184.1|CI436184
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|88517830|gb|CI444399.1|CI444399
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|29633982|gb|CB638991.1|CB638991
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|87010180|gb|CI279277.1|CI279277
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|88296575|gb|CI537542.1|CI537542
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|396941513|gb|HO188722.1|HO188722
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|29634038|gb|CB639047.1|CB639047
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|89192305|gb|CI049766.1|CI049766
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|88470715|gb|CI407986.1|CI407986
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|89168012|gb|CI109216.1|CI109216
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|88295016|gb|CI522970.1|CI522970
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|86429747|gb|CI082170.1|CI082170
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|88480891|gb|CI418162.1|CI418162
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|88466483|gb|CI532290.1|CI532290
EST:     GCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: GCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
EST: gi|29643626|gb|CB648633.1|CB648633
EST:     ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAG                         GTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC
genomic: ATTCTTATTTTCTTCAGGCACAGGCAATGTGTTACTACAATTCATAACAGgtatctctcc ... tttttcacagGTAATTTTTATGAAGACTGTCATGGGATGTAGGGTGAATTGAGTGCACTTC