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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaacaaaccagcccggataacatgctactcttctcattctacctagttttacctgccacttgctccactgataatgacccccaatgttctttcgtgcagCGATCCAAGCAAACGACCATCGTTCTCCCAGCTCTTGTCACCGCTGAAGCAATTACAGCGGTTAGTTGTTCCAGAAAACTGCTGACATCCCTTCCTGAGA

Basic information

species Oryza sativa
transcript LOC_Os02g12810.4
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g12810.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G413069_T01 (Zea mays), 3'ss of exon 12
gtaagaacaaaccagcccggataac--atgctactcttctcattctacctagttttacctgccacttgctccactgataatgacccccaatgttctttcgtgcagCGATCCAAGCAAACGACCATCGTTCTCCCAGCTCTTGTCACCGCTGAAGCAATTACAGCGGTTAGTTGTTCCAGAAAACTGCTGACATCC-CTTCCTGAGA
|||||    |   |         |   ||   |  |  ||  || | ||    |     ||   || ||  | || ||  ||| | ||    || |||    ||||||||| |||||| | || |||||||||||||||||||| || || |||||| |||| |  ||||||||| |||||| |||||||||| |  |||||| | 
gtaaggctcatttaatttcccccatctatatcatcccactttttgtgccct-ctccctgtgttgctcgccacgctcatgctgaactccccctttttttt---cagCGATCCGAGCAAAAGGCCGTCGTTCTCCCAGCTCTTGTCCCCTCTAAAGCAACTACAACATTTAGTTGTTACAGAAAGCTGCTGACATGCGTTTCCTGGG-
















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|58589572|gb|CF987880.1|CF987880
EST:     TAATATCTTCGTGCTGGGAAAA                         CGATCCAAGCAAACGACCATCGTTCTCCCAGCTCTTGTCACCGCTGAAGCA
genomic: TAATATCTTCGTGCTGGGAAAAgtaagaacaa ... tttcgtgcagCGATCCAAGCAAACGACCATCGTTCTCCCAGCTCTTGTCACCGCTGAAGCA
EST: gi|33692624|gb|CF320863.1|CF320863
EST:     AAAGAAATTGACCCACTGGTGGCTACCATAATATCTTCGTGCTGGGAAAA                         CGATCCAAGCAAACGACCATCGTTCTCCCAGCTCTTGTCACCGCTGAAGCA
genomic: AAAGAAATTGACCCACTGGTGGCTACCATAATATCTTCGTGCTGGGAAAAgtaagaacaa ... tttcgtgcagCGATCCAAGCAAACGACCATCGTTCTCCCAGCTCTTGTCACCGCTGAAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttacctgccacttgctccactgataatgacccccaatgttctttcgtgcagCGATCCAAGCAAACGACCATCGTTCTCCCAGCTCTTGTCACCGCTGAAGCAATTACAGCGGTTAGTTGTTCCAGAAAACTGCTGACATCCCTTCCTGAGA
                     cactgat  putative branch site (score: 3)
                                        tgttctttc  putative PPT
                        tgataat  TA-rich tract