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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttctcgtgctagttttgttcaattggcgtcagaacaattctggttttacaatttttttctcctatttgttgaatgaaaccttttctctggatatgcagGAAAACTTGATCCATGATGACCAGAAATTGATACTGTTAGCATCTCTTAGTGATTCATTGGAATATTTAGCGGATTCAGTTGAAAG

Basic information

species Oryza sativa
transcript LOC_Os08g22864.2
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g22864.1 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G327394_T01 (Zea mays), 3'ss of exon 18
--gtttctcgtgctagttttgttcaattggcgtcag--aacaattctggttttacaatttttttctcctatttgttgaatgaaaccttttctctggatatgcagGAAAACTTGATCCATGATGACCAGAAATTGATACTGTTAGCATCTCTTAGTGATTCATTGGAATATTTAGCGGATTCAGTTGAAAG
  ||||   |  ||      |   |  ||  || ||  | |||||   ||   ||| || | |  | ||  ||||    |     | | |   ||  | |||||||||||||||||||||| ||||||||| ||||| |||| || ||||||||||| ||||||||||||||||| ||||||||||||||
cagtttaatgc-cttacagcgacaatctgatgttagttatcaattt--gtaagaca-ttctgtgttgctgcttgtaacttctgtgcgtgtgcttgtctgtgcagGAAAACTTGATCCATGACGACCAGAAACTGATATTGTTGGCTTCTCTTAGTGACTCATTGGAATATTTAGCAGATTCAGTTGAAAG
















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|3107852|gb|D43592.1|D43592
EST:     TAGAGATTGAACTAAGTGATCTCCTATTGGATATGTGCCCAATAAAACAG                         GAAAACTTGATCCATGATGACCAGAAATTGATACTGTTAGCATCTCTTAGT
genomic: TAGAGATTGAACTAAGTGATCTCCTATTGGATATGTGCCCAATAAAACAGgtatcttcta ... ggatatgcagGAAAACTTGATCCATGATGACCAGAAATTGATACTGTTAGCATCTCTTAGT
EST: gi|29665535|gb|CB661810.1|CB661810
EST:     TAGAGATTGAACTAAGTGATCTCCTATTGGATATGTGCCCAATAAAACAG                         GAAAACTTGATCCATGATGACCAGAAATTGATACTGTTAGCATCTCTTAGT
genomic: TAGAGATTGAACTAAGTGATCTCCTATTGGATATGTGCCCAATAAAACAGgtatcttcta ... ggatatgcagGAAAACTTGATCCATGATGACCAGAAATTGATACTGTTAGCATCTCTTAGT
EST: gi|218497128|gb|FG954379.1|FG954379
EST:     TAGAGATTGAACTAAGTGATCTCCTATTGGATATGTGCCCAATAAAACAG                         GAAAACTTGATCCATGATGACCAGAAATTGATACTGTTAGCATCTCTTAGT
genomic: TAGAGATTGAACTAAGTGATCTCCTATTGGATATGTGCCCAATAAAACAGgtatcttcta ... ggatatgcagGAAAACTTGATCCATGATGACCAGAAATTGATACTGTTAGCATCTCTTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttacaatttttttctcctatttgttgaatgaaaccttttctctggatatgcagGAAAACTTGATCCATGATGACCAGAAATTGATACTGTTAGCATCTCTTAGTGATTCATTGGAATATTTAGCGGATTCAGTTGAAAG
                                   ccttttctctg  CT-rich tract
      aatttttttct  TA-rich tract