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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctccaaattctgcttgtttggagagaaattttctctagatgcctctagtctcttaagaattatgactcatagaactataatattttccttcaaaacagGTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATCAACTCTATTCGTATTAGCATGAAG

Basic information

species Oryza sativa
transcript LOC_Os03g63090.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g63090.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G112015_T01 (Zea mays), 3'ss of exon 4
--------------ttctccaaattctgcttgtttggagagaaattttctctagatgcctctagtctcttaagaattatgactcatagaactataatattttccttcaaaacagGTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATCAACTCTATTCGTATTAGCATGAAG
              || |||   || ||||| |||||| ||| ||||    ||  | |   || | | || |||||| |||||||||   ||   | ||||   |     |||||| || || ||||| || ||||||||||| || ||||||||||||||||||||||| || || || |||||||||
agatgtaacttacattatccc--ttatgcttatttgga-agagattta---taagttctgttaatattttgagaattgtgactcata---ctcctacatttatgt-----acagGTACTGATATGCCGCAACGAAGCAGAAAAATGCTTGATAGAGACTTCAATCAACTCCATACGAATAAGCATGAAG
















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|218490476|gb|FG964035.1|FG964035
EST:     GACTAGCCCTGAACTTCTGCTGAACCCA                         GTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATC
genomic: GACTAGCCCTGAACTTCTGCTGAACCCAgtaaggaatc ... ttcaaaacagGTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATC
EST: gi|218502090|gb|FG953891.1|FG953891
EST:     CTTCTGCTGAA-CCA                         GTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATC
genomic: CTTCTGCTGAACCCAgtaaggaatc ... ttcaaaacagGTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATC
EST: gi|33683666|gb|CF311905.1|CF311905
EST:     GACTAGCCCTGAACTTCTGCTGAACCCA                         GTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATC
genomic: GACTAGCCCTGAACTTCTGCTGAACCCAgtaaggaatc ... ttcaaaacagGTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATC
EST: gi|117226003|gb|CT845644.1|CT845644
EST:     GACTAGCCCTGAACTTCTGCTGAACCCA                         GTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATC
genomic: GACTAGCCCTGAACTTCTGCTGAACCCAgtaaggaatc ... ttcaaaacagGTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctagtctcttaagaattatgactcatagaactataatattttccttcaaaacagGTGCTCATTTGCCGTAATGAAGCAGAAAAGTGTTTGATAGAGACTTCAATCAACTCTATTCGTATTAGCATGAAG
                                     tattttccttc  CT-rich tract
                         atagaactataatatt  TA-rich tract