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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtacttttctgagacgcaagatttccctgtagctaccttttgcactttgttctgacttagacatcaaatatttcccattatatttcccttagtatttttgtgattatctgctcaatattcactattttcttataatagtcattgttaacatcttcgatttgacagGTACGTAGAACGTGTATTGTCTGCGGAAAGAGACAAGATGAAGTGTTGCACTATTGAATATAATCACCCCAAGCAGTCATCACAGGCGTTTGTTTACGGA

Basic information

species Oryza sativa
transcript LOC_Os03g19690.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g19690.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G135968_T01 (Zea mays), 3'ss of exon 15
gtatgtacttttctgagacgcaagatttccctgtagctaccttttgcactttgttctgacttagacatcaaatatttcccattatatttccct-tagtatttttgtgattatctgctcaatattcactattttcttataatagtcattgttaacatcttcgatttgacagGTACGTAGAACGTGTATTGTCTGCGGAAAGAGACAAGATGAAGTGTTGCACTATTGAATATAATCACCCCAAGCAGTCATCACAGGCGTTTGTTTACGGA
                                                 | ||||   ||  |||    | ||     ||    || |    |    | ||||||  | |   |  |     ||   |   |||  |  ||  | |   || ||  ||||   |||||||||| || ||||||||  |  ||   || |||||||||||||| || || |  |||||||||| ||| || ||||||||||| ||||| ||||| || |||
------------------------------------------------gtatgtttatacagagatgctatattcgcacctggctactcttgtgctatctttttgaaactcattattttcattttgtttcattcgaaacatttttaccctttaccccttct-cttgacagGTATGTGGAACGTGTTCTAGCTAACGAGAGAGACAAGATGAAATGCTGTAGCATTGAATATAGTCATCCAAAGCAGTCATCCCAGGCTTTTGTCTATGGA
















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|38469915|gb|CF954046.1|CF954046
EST:     ATCAAAACAGTTCTGATATCCTGCAGAGCACTATATTTACACAACA                         GTACGTAGAACGTGTATTGTCTGCGGAAAGAGACAAGATGAAGTGTTGCAC
genomic: ATCAAAACAGTTCTGATATCCTGCAGAGCACTATATTTACACAGCAgtatgtactt ... gatttgacagGTACGTAGAACGTGTATTGTCTGCGGAAAGAGACAAGATGAAGTGTTGCAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaatattcactattttcttataatagtcattgttaacatcttcgatttgacagGTACGTAGAACGTGTATTGTCTGCGGAAAGAGACAAGATGAAGTGTTGCACTATTGAATATAATCACCCCAAGCAGTCATCACAGGCGTTTGTTTACGGA
                                tgttaac  putative branch site (score: 2)
     tattcactattttctt  TA-rich tract