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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctcttatatgtagctcttgacgttcatttcttcagtattggtttaatctctttttgattttttttatggctagttcaagtattgttcctgctttttcagAAGGAAGTGCTAGTGAATCTGATGATTATAATGAACCACAAGATCCAGCTGAAGACGAAACTGACGATGATGAGAATATATATTTTGATACACGAGATTT

Basic information

species Oryza sativa
transcript LOC_Os03g49770.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g49770.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G147332_T01 (Zea mays), 3'ss of exon 3
gctcttatatgtagctcttgacgttcatttcttcagtattggtttaatctcttt-ttgatttttttta--tggctagttcaagtattgttcctgctttttcagAAGGAAGTGCTAGTGAATCTGATGATTATAATGAACCACAAGATCCAGCTGAAGACGAAACTGACGATGATGAGAATATATATTTTGATACACGAGATTT---
  | |||| || |   | ||   | ||| | ||| |   |    |   |  |||    ||||  ||||  |||||   | |  |||  ||  | | ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||   || ||||| |||||||||||  | |||||||||||| |||||||   
-tttttat-tgcattacatggaatccatctattctgcgctctaatgtacaatttaccaatttggtttacttggctgaatgagctatcattttt-ccttttcagAAGGAAGTGCTAGTGAATCTGATGATTATAATGAACCACAAGATCCTGCTGAA---GAGACTGATGATGATGAGAACCTTTATTTTGATACAAGAGATTTTCT

upper sequence: LOC_Os03g49770.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G157172_T01 (Zea mays), 3'ss of exon 4
gctcttatatgtagctcttgacgttcatttcttcagtattggttta---atctctttttgatttttttta--tggctagttcaagtattgttcctgctttttcagAAGGAAGTGCTAGTGAATCTGATGATTATAATGAACCACAAGATCCAGCTGAAGACGAAACTGACGATGATGAGAATATATATTTTGATACACGAGATTT---
    |  |   || |     |  |     | |  ||   | ||||     |     |||| |||  ||||  |||||   | || ||||  |    ||| |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||   || ||||||||||| |  ||| | || ||||||||| |||||||   
----tattgcataacatggaatctatccatttcaagctctagtttctgtgtacgaatttggtttactttacctggcttaatgaactattagtttc-cttattcagAAGGAAGTGCTAGCGAATCTGATGATTATAATGAACCACAAGATCCAGCTGAA---GAGACTGACGATGAAGCAAATCTTTACTTTGATACAAGAGATTTTCT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctctttttgattttttttatggctagttcaagtattgttcctgctttttcagAAGGAAGTGCTAGTGAATCTGATGATTATAATGAACCACAAGATCCAGCTGAAGACGAAACTGACGATGATGAGAATATATATTTTGATACACGAGATTT
       ttttgat  putative branch site (score: 4)
                                     ttgttcctgctttttc  putative PPT
      tttttgatttttttta  TA-rich tract