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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acagctaaaacaaccatgttttgtatgaaccaattagattggtccgtagtttacctgttttaagcttgtactgaatgttgcctggtgctatctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAGAACAGTAATTCATGTACCTTTGCTTGTGATTGGCATTGACGTGAGAACC

Basic information

species Oryza sativa
transcript LOC_Os01g01350.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g01350.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G069827_T03 (Zea mays), 3'ss of exon 6
----acagctaaaacaaccatgttttgtatgaaccaattagattggtccgtagtttacctgttttaagcttgtactgaatgttgcctggtgct-atctg--gtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAGAACAGTAATTCATGTACCTTTGCTTGTGATTGGCATTGA--CGTGAGAACC-
        |||||| || || | |||      |||| ||   | ||   | ||||| | ||  |  || | ||| | |  |||   || | || |||||  ||||||| ||||||||||||||||||||| || ||||| |||||| | |||||||||||   ||||   |||   |    ||    ||||  |  |  |     |    
ttgtttgcctaaaaaaaacacgcttt------accactttattcggctagaagtttgcttggct-gaggtggtaataagggttatttgcttcttatctgatgtgcagGAGGATGAGCTAGGATTGCCAGCGGTGCCTCGGGCATCACTTCGCAGTTAGAA--ATAATCT-TGTGTTTCGATTTTAAGTTGGTGTGAAAACTCTGTAGTTT
















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|88532305|gb|CI461783.1|CI461783
EST:     TACCGCTCCTGCACCAGTCCCATTAAGCAGGCAGCAG                         GTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
genomic: TACCGCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAGgttagtttat ... tctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
EST: gi|33803103|gb|CF327422.1|CF327422
EST:     TGCCAGCTGCACCTACCGCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAG                         GTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
genomic: TGCCAGCTGCACCTACCGCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAGgttagtttat ... tctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
EST: gi|88532022|gb|CI461477.1|CI461477
EST:     TGCCAGCTGCACCTACCGCTCCTNCAGCAGTCCCAGTAAGCAGGCAGCAG                         GTGGATGAGGTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
genomic: TGCCAGCTGCACCTACCGCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAGgttagtttat ... tctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
EST: gi|88532113|gb|CI461575.1|CI461575
EST:     CCTGCACCAGTCCCANTAAGCAGGCAGCAG                         GTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
genomic: CCTGCAGCAGTCCCAGTAAGCAGGCAGCAGgttagtttat ... tctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
EST: gi|88557001|gb|CI487372.1|CI487372
EST:     CAGTCCCAGTAAGCAGGCAGCAG                         GTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
genomic: CAGTCCCAGTAAGCAGGCAGCAGgttagtttat ... tctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
EST: gi|88218574|gb|CI218423.1|CI218423
EST:     TGCCAGCTGCACCTACCGCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAG                         GTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
genomic: TGCCAGCTGCACCTACCGCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAGgttagtttat ... tctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
EST: gi|88551594|gb|CI481665.1|CI481665
EST:     CAGTCCCAGTAAGCAGGCAGCAG                         GTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
genomic: CAGTCCCAGTAAGCAGGCAGCAGgttagtttat ... tctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
EST: gi|88534217|gb|CI462923.1|CI462923
EST:     GCACCTACCGCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAG                         GTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
genomic: GCACCTACCGCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAGgttagtttat ... tctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
EST: gi|88528837|gb|CI457106.1|CI457106
EST:     GCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAG                         GTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
genomic: GCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAGgttagtttat ... tctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
EST: gi|86511478|gb|CI154111.1|CI154111
EST:     TGCCAGCTGCACCTACCGCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAG                         GTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG
genomic: TGCCAGCTGCACCTACCGCTCCTGCAGCAGTCCCAGTAAGCAGGCAGCAGgttagtttat ... tctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtagtttacctgttttaagcttgtactgaatgttgcctggtgctatctggtgcagGTGGATGAGCTAGGATTGCCAGCAGTCCCTCGAGCATCAATCCGCAGTTAGAACAGTAATTCATGTACCTTTGCTTGTGATTGGCATTGACGTGAGAACC
          tgttttaa  TA-rich tract