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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actcatccttgaggagatttgagcttaattttgtaacatggacgctttcattatctctgaagtactttctatgatttaagctgatatatttatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGATACCACTCTAAAG

Basic information

species Oryza sativa
transcript LOC_Os12g06810.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g06810.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 3
actcatccttgaggagatttgagcttaattttgtaacatggacgctt--tcattatctc-tgaagtactttctatgatttaagctgatatatttatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGATACCACTCTAAAG
  |  |     |  |   || || ||   | |||||   | |  ||   |  |  |  | |  | |  ||| | |  ||||||||  | | |||||  |||||||||||||||||||||| |||||  | || ||||||||||| |||||||| || ||  |||||
--ttgtttgaaactaacatttagtttctgtctgtaagtggaatactgaatagtagtaccattgattgttttatgttgtttaagctt-tttctttattgtgcagGTTAATGATGCCATTATAGTTGGAGACAAGCTTGTTTCCTGCTCCTCAGACACTACAATAAAG
















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|88427243|gb|CI586791.1|CI586791
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGG                         GTTAATGATGCCATT
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATT
EST: gi|88299299|gb|CI572251.1|CI572251
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGG                         GTTAATGATGCCATTATT
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATTATT
EST: gi|88385685|gb|CI566547.1|CI566547
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGG                         GTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
EST: gi|88575849|gb|CI669994.1|CI669994
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGG                         GTTAATGATGCCATTATTGT
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATTATTGT
EST: gi|58659315|gb|CK047995.1|CK047995
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTAGAGTCACATGTTGATTGG                         GTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
EST: gi|88360459|gb|CI608461.1|CI608461
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGG                         GTTAATGATGCCATTATTGTTGGGCAAAATCTTG
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTG
EST: gi|88392951|gb|CI614833.1|CI614833
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGG                         GTTAATGATGCCATTATTGTTGGC-AAAATCTTGTTTCCTGTTCCTCAGAT
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
EST: gi|117217320|gb|CT852008.1|CT852008
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGG                         GTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
EST: gi|87023589|gb|CI286340.1|CI286340
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGG                         GTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
EST: gi|29666968|gb|CB663243.1|CB663243
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGG                         GTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
EST: gi|29678629|gb|CB674904.1|CB674904
EST:     AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGG                         GTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT
genomic: AAAATGGAGTCGCAAGCTTCTCAGCAACTTTTGAGTCACATGTTGATTGGgtatgcgttt ... tatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcattatctctgaagtactttctatgatttaagctgatatatttatcatgcagGTTAATGATGCCATTATTGTTGGCCAAAATCTTGTTTCCTGTTCCTCAGATACCACTCTAAAG
                                 agctgat  putative branch site (score: 4)
                                    tgatatatttatcat  TA-rich tract