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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agctgaaaaatatatattggcatattctgaacttttgatatgtagagatacttggataactatgctttgttcttaattcttatttttgtgctcattgtagGATGTGGTTCTTGAAAACCTGGATATAATGAGAGTCATATTTGGAATTTTCCCAACCTATCGGAATAG

Basic information

species Oryza sativa
transcript LOC_Os08g32630.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g32630.3 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM5G851815_T01 (Zea mays), 3'ss of exon 7
--agctgaaaaatatatattggcatattctgaacttttgatatgtagagatacttggataactatgctttgttcttaattcttatttttgtgctcattgtagGATGTGGTTCTTGAAAACCTGGATATAATGAGAGTCATATTTGGAATTTTCCCAACCTATCGGAATAG
  | |  |     |   ||||  ||||  |    |  |  |   |    ||| |  ||| |  ||  ||  || || | |  | || ||||| || |||||||||||| ||||| ||||  |||||||||  ||||| |||||||||||||||||||| |||||| ||||
ctatccaatttgcacgaattgatatatattatgttcgttgt-catttgcatattatgattatcatttttatttatttagttat-ttattgtgttctttgtagGATGTGCTTCTTCAAAATTTGGATATAAGAAGAGTTATATTTGGAATTTTCCCAACTTATCGGGATAG
















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|300215548|gb|HO088174.1|HO088174
EST:     AGCTAGAAGAACTTTTGGAGACGTTCTGGGATCTTATGCCTGCTTACGAG                         GATGTGGTTCTTGAAAACCTGGATATAATGAGAGTCATATTTGGAATTTTC
genomic: AGCTAGAAGAACTTTTGGAGACGTTCTGGGATCTTATGCCTGCTTACGAGgtaaacaaat ... ctcattgtagGATGTGGTTCTTGAAAACCTGGATATAATGAGAGTCATATTTGGAATTTTC
EST: gi|58656158|gb|CK044838.1|CK044838
EST:     AGCTAGAAGAACTTTTGGAGACGTTCTGGGATCTTATGCCTGCTTACGAG                         GATGTGGTTCTTGAAAACCTGGATATAATGAGAGTCATATTTGGAATTTTC
genomic: AGCTAGAAGAACTTTTGGAGACGTTCTGGGATCTTATGCCTGCTTACGAGgtaaacaaat ... ctcattgtagGATGTGGTTCTTGAAAACCTGGATATAATGAGAGTCATATTTGGAATTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatacttggataactatgctttgttcttaattcttatttttgtgctcattgtagGATGTGGTTCTTGAAAACCTGGATATAATGAGAGTCATATTTGGAATTTTCCCAACCTATCGGAATAG
                         tcttaat  putative branch site (score: 3)
                    tttgttcttaattctt  TA-rich tract