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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcaaaatgtgctttcaaattttatgcgatgtttagtttatgagattattgatcaattatcatcatgaagtattttcagtggaattatccctaattgcagGATGCAGGAATTGGCACAAGCATTGACTCATTCTATGAGTATCTTCTAAAG

Basic information

species Oryza sativa
transcript LOC_Os01g56670.4
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56670.3 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 8
agcaaaatgtgctttcaaatttta-tgcgatgtttagtttatgagattattgatcaattatcatcatgaagtattttcagtggaattatccctaattgcagGATGCAGGAATTGGCACAAGCATTGACTCATTCTATGAGTATCTTCTAAAG
|    ||| |  ||| |  ||||  || |||| |||  || | || | |||||||||  || | |      || |  |  | |  || |||||  ||| |||||||||||||||||||||||||||| ||||||||||| ||||||||||||
atatcaatatttttttatttttttctgtgatgcttaaattttaagttgattgatcaac-atgaactattgctaatgacgttagttttttccctggttgtagGATGCAGGAATTGGCACAAGCATTGATTCATTCTATGAATATCTTCTAAAG
















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|88361880|gb|CI682051.1|CI682051
EST:     ACCTTGTTGGTGCCCATATAAATGTATTTACTGGTGAATGGACACAGAAG                         GATGCAGGAATTGGCACAAGCATTGACTCATTCTATGAGTATCTTCTAAAG
genomic: ACCTTGTTGGTGCCCATATAAATGTATTTACTGGTGAATGGACACAGAAGgtattaactt ... ctaattgcagGATGCAGGAATTGGCACAAGCATTGACTCATTCTATGAGTATCTTCTAAAG
EST: gi|88394177|gb|CI684850.1|CI684850
EST:     ACCTTGTTGGTGCCCATATAAATGTATTTACTGGTGAATGGACACAGAAG                         GATGCAGGAATTGGCACAAGCATTGACTCATTCTATGAGTATCTTCTAAAG
genomic: ACCTTGTTGGTGCCCATATAAATGTATTTACTGGTGAATGGACACAGAAGgtattaactt ... ctaattgcagGATGCAGGAATTGGCACAAGCATTGACTCATTCTATGAGTATCTTCTAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattgatcaattatcatcatgaagtattttcagtggaattatccctaattgcagGATGCAGGAATTGGCACAAGCATTGACTCATTCTATGAGTATCTTCTAAAG
                                           ccctaat  putative branch site (score: 3)
                                       ttatccct  CT-rich tract
      atcaattat  TA-rich tract