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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgctgaaacattttctgatattgtgaattttctagtgtttgagatgcaatgaagataaaacctgaataattttgtgcagAAACTTTCATTTGTTACATATGGGAAGGAAAAACAGAGCAAGCTGGTCTGGCGAAACCAGAACAGCCCTGGTGTTGGGTGTGGCTTCCGGAAAAGATTCC

Basic information

species Oryza sativa
transcript LOC_Os02g42910.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g42910.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G066851_T01 (Zea mays), 3'ss of exon 1
gtacgtgctgaaacattttctgatat-tgtgaattttctagtgtttgagatgcaatgaagataaaacctgaataattttgtgcagAAACTTTCATTTGTTACATATGGGAAGGAAAAACAGAGCAAGCTGGTCTGGCGAAACCAGAACAGCCCTGGTGTTGGGTGTGGCTTCCGGAAAAGATTCC
||| ||  | | | |       || | | |     | |||||||||  |||||  ||       || ||  | ||| || ||||||||||| ||||||  ||||||||||| |||||||| ||||||||||| ||| || | || | |||||| |||||||| ||||||||||  ||||  | ||
gtatgtaattacatacggcagaatttgtttttgcatgctagtgtttaggatgct-tgtt-----aatctagacaatcttctgcagAAACTTACATTTGCAACATATGGGAACGAAAAACAAAGCAAGCTGGTTTGGAGACATCAAAGCAGCCCCGGTGTTGGATGTGGCTTCCCTAAAAAGTACC
















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|27548914|gb|CA766879.2|CA766879
EST:     AACCGTCCATTGATCCAACATGGACTCCTATTGACAAGAGAGCAAGACAG                         AAACTTTCATTTGTTACATATGGGAAGGAAAAACAGAGCAAGCTGGTCTGG
genomic: AACCGTCCATTGATCCAACATGGACTCCTATTGACAAGAGAGCAAGACAGgtacgtgctg ... ttttgtgcagAAACTTTCATTTGTTACATATGGGAAGGAAAAACAGAGCAAGCTGGTCTGG
EST: gi|88272418|gb|CI386273.1|CI386273
EST:     AGAGAGCAAGACAG                         AAACTTTCATTTGTTACATATGGGAAGGAAAAACAGAGCAAGCTGGTCTGG
genomic: AGAGAGCAAGACAGgtacgtgctg ... ttttgtgcagAAACTTTCATTTGTTACATATGGGAAGGAAAAACAGAGCAAGCTGGTCTGG
EST: gi|86885333|gb|CI317093.1|CI317093
EST:     AACCGTCCATTGATCCAACATGGACTCCTATTGACAAGAGAGCAAGACAG                         AAACTTTCATTTGTTACATAT-GGAAGGAAAAACAGACCAAGCTGGTCTGG
genomic: AACCGTCCATTGATCCAACATGGACTCCTATTGACAAGAGAGCAAGACAGgtacgtgctg ... ttttgtgcagAAACTTTCATTTGTTACATATGGGAAGGAAAAACAGAGCAAGCTGGTCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattttctagtgtttgagatgcaatgaagataaaacctgaataattttgtgcagAAACTTTCATTTGTTACATATGGGAAGGAAAAACAGAGCAAGCTGGTCTGGCGAAACCAGAACAGCCCTGGTGTTGGGTGTGGCTTCCGGAAAAGATTCC
                                      tgaataatttt  TA-rich tract