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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcttcttactattgccaagataccatttttgtttctgaaatagctcctgacttctttgttccatcagttttgagtttttcttttggttgtcctattgaagGATAACTATTTTGAGGAGGCACTCAAAATGAGAAACCTGCTTGAGGAATTCTATCAGAATCATGGCAAGCACAAGCCTTCAATTCTTGGTGTTAGAGAAC

Basic information

species Oryza sativa
transcript LOC_Os03g02756.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G453794_T01 (Zea mays), 3'ss of exon 1
-tcttcttactattgccaag-ataccatttttgtttctgaaatagctcctgacttcttt---gttccatcagttttgagtttttcttttggttgtccta--------ttgaagGATAACTATTTTGAGGAGGCACTCAAAATGAGAAACCTGCTTGAGGAATTCTATCAGAATCATGGCAAGCACAAGCCTTCAATTCTTGGTGTTAGAGAAC
 |   ||||   ||    |  || ||||  ||| | |||  |  | |     |  ||||   |||   |  |  |   || |||  ||    ||| ||         ||  |||||||||| |||||||||||||| ||||||||||||||||||||||| |||| || ||| | |||||||||  | ||||| |||||||||||||| || |
gtgagcttagacttatagatcattccatcattgatactggcactgtttgatgcagctttacagttaatttggaatcatgtatttgcttcacctgtgcttagctgtttttatagGATAACTACTTTGAGGAGGCACTTAAAATGAGAAACCTGCTTGAGGAGTTCTCTCTGAAGCGTGGCAAGCATTACCCTTCTATTCTTGGTGTTAGGGAGC
















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|300216075|gb|HO088701.1|HO088701
EST:     CCATAATATTCACCCGTGGAAATGCAGTGCAAACCATTGATATGAATCAG                         GATAACTATTTTGAGGAGGCACTCAAAATGAGAAACCTGCTTGAGGAATTC
genomic: CCATAATATTCACCCGTGGAAATGCAGTGCAAACCATTGATATGAATCAGgtatgctgtt ... cctattgaagGATAACTATTTTGAGGAGGCACTCAAAATGAGAAACCTGCTTGAGGAATTC
EST: gi|88399969|gb|CI588273.1|CI588273
EST:     TGCAAACCATTGATATGAATCAG                         GATAACTATTTTGAGGAGGCACTCAAAATGAGAAACCTGCTTGAGGAATTC
genomic: TGCAAACCATTGATATGAATCAGgtatgctgtt ... cctattgaagGATAACTATTTTGAGGAGGCACTCAAAATGAGAAACCTGCTTGAGGAATTC
EST: gi|33679231|gb|CF307470.1|CF307470
EST:     CCATAATATTCACCCGTGGAAATGCAGTGCTTTCCATTGATATGAATCAG                         GATAACTATTTTGAGGAGGCACTCATAATGAGAAACCTGCTTGAGGAATTC
genomic: CCATAATATTCACCCGTGGAAATGCAGTGCAAACCATTGATATGAATCAGgtatgctgtt ... cctattgaagGATAACTATTTTGAGGAGGCACTCAAAATGAGAAACCTGCTTGAGGAATTC
EST: gi|29675246|gb|CB671521.1|CB671521
EST:     CCATAATATTCACCCGTGGAAATGCAGTGCAAACCATTGATATGAATCAG                         GATAACTATTTTGAGGAGGCACTCAAAATGAGAAACCTGCTTGAGGAATTC
genomic: CCATAATATTCACCCGTGGAAATGCAGTGCAAACCATTGATATGAATCAGgtatgctgtt ... cctattgaagGATAACTATTTTGAGGAGGCACTCAAAATGAGAAACCTGCTTGAGGAATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgacttctttgttccatcagttttgagtttttcttttggttgtcctattgaagGATAACTATTTTGAGGAGGCACTCAAAATGAGAAACCTGCTTGAGGAATTCTATCAGAATCATGGCAAGCACAAGCCTTCAATTCTTGGTGTTAGAGAAC
 tcctgac  putative branch site (score: 2)
                                         ttgtcct  putative PPT
                             tttttctttt  TA-rich tract