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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggtttttggcaataaagaaagctgccgcactctacatcctactttagagttttgcagggactgacatcgtcaatataaggttgataatttgcttataacttgaccggatctcttgcagAGTGCTATTGGTGAAGGCATGACTCGCAGGGATCATTCTGATGTCTCGAACCAG

Basic information

species Oryza sativa
transcript LOC_Os01g51380.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g51380.2 (Oryza sativa), 3'ss of exon 12
lower sequence: PP1S100_117V6.1 (Physcomitrella patens), 3'ss of exon 12
gtaaggtttttggcaataaagaaagctgccgcactctacatcctactttagagttttgcagggactgacatcgtcaatataaggttgataatttgcttataacttgaccggatctcttgcagAGTGCTATTGGTGAAGGCATGACTCGCAGGGATCATTCTGATGTCTCGAACCAG
                |         |   | | |   ||    || ||   || |    | |      ||| |    ||  |||||  | |       |  ||| ||      || ||||||||||||||||  | || |||||||| | |||||||||||| ||||| ||||||
----------------tgtttgctttttaagtatttcccacttaacgtttaggtgtgattgagttatgtatcatttcgatttggttgggactaactgagttccttcac------tcctgcagAGTGCTATTGGACAGGGAATGACTCGAAAGGATCATTCTGAAGTCTCTAACCAG
















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|33811101|gb|CF331441.1|CF331441
EST:     ATCTATCCACCGATTAATGTCCTTCCTTCACTCTCCCGGCTCATGAAG                         AGTGCTATTGGTGAAGGCATGACTCGCAGGGATCATTCTGATGTCTCGA
genomic: ATCTATCCACCGATTAATGTCCTTCCTTCACTCTCCCGGCTCATGAAGgtaaggtttt ... tctcttgcagAGTGCTATTGGTGAAGGCATGACTCGCAGGGATCATTCTGATGTCTCGA
EST: gi|58687170|gb|CK075857.1|CK075857
EST:     ATCTATCCACCGATTAATGTCCTTCCTTCACTCTCCCGGCTCATGAAG                         AGTGCTATTGGTGAAGGCATGACTCGCAGGGATCATTCTGATGTCTCGAAC
genomic: ATCTATCCACCGATTAATGTCCTTCCTTCACTCTCCCGGCTCATGAAGgtaaggtttt ... tctcttgcagAGTGCTATTGGTGAAGGCATGACTCGCAGGGATCATTCTGATGTCTCGAAC
EST: gi|27576717|gb|CA999411.1|CA999411
EST:     ATCTATCCACCGATTAATGTCCTTCCTTCACTCTCCCGGCTCATGAAG                         AGTGCTATTGGTGAAGGCATGAC
genomic: ATCTATCCACCGATTAATGTCCTTCCTTCACTCTCCCGGCTCATGAAGgtaaggtttt ... tctcttgcagAGTGCTATTGGTGAAGGCATGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatcgtcaatataaggttgataatttgcttataacttgaccggatctcttgcagAGTGCTATTGGTGAAGGCATGACTCGCAGGGATCATTCTGATGTCTCGAACCAG
                                             tctcttgc  CT-rich tract
                    ataatttgcttataa  TA-rich tract