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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttttaaattgggaaaaaaaccgagtactatatttatattatattaatttttttttaaaaaaatcctcggtgaccttacaagtaaaatttactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTAGTCCTGGGATATGTCACAGGCCTTGTTGTTGATCTTGCTATTCTAATTG

Basic information

species Oryza sativa
transcript LOC_Os08g34060.2
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g34060.3 (Oryza sativa), 3'ss of exon 20
lower sequence: GRMZM2G160927_T01 (Zea mays), 3'ss of exon 8
------------------------------------------------------------------------------------tgttttaaattgggaaaaaaaccgagtac----tatatttatattatattaattttttttt----aaaaaaatcctcgg--tgacct------tacaagtaaaatttactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTAGTCCTGGGATATGTCACAGGCCTTGTTGTTGATCTTGCTATTCTAATTG
                                                                                      | | ||| |     | ||      ||     |||||| |||||   ||  ||||| |||    |   || || |     ||   |      || || | |||| |||||||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||||||  |||||||||||||| || | |||||||||||||||||||| ||||
gtaaattcattatgaaaaaaataatcagcaccttccctaaaccaccttaggaagcactgtgttgggtagcaaattttgatgtttaatataaaactacatcagaatttacctatatcatatattgatatttcctttctttttcttttgttatttaagtctttcacctgttttgtctactataaatgaaatgtactttgcagATAGATGTTGACATCGGTTCATCATCCGTTGCCCGGAGCATTATTGGTCTAGTATTGGGATATGTCACAAGCATAGTTGTTGATCTTGCTATTCTTATTG
















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|157650644|gb|EX450278.1|EX450278
EST:     TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|86870886|gb|CI326712.1|CI326712
EST:     TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|88958682|gb|CI096197.1|CI096197
EST:     TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|88964786|gb|CI084784.1|CI084784
EST:     TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTCGCACGGAGCATTATTGGTCTA
genomic: TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|29630515|gb|CB635524.1|CB635524
EST:     TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|29622067|gb|CB627078.1|CB627078
EST:     TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|29623531|gb|CB628542.1|CB628542
EST:     TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|86430572|gb|CI082995.1|CI082995
EST:     TGGGAAAAGCAGTAACATGCAATAACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|12622371|gb|AU172584.1|AU172584
EST:     CATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: CATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|88252721|gb|CI351149.1|CI351149
EST:     AACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: AACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|86862408|gb|CI345515.1|CI345515
EST:     TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|88271238|gb|CI387291.1|CI387291
EST:     CAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: CAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
EST: gi|86499063|gb|CI141696.1|CI141696
EST:     TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAG                         ATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA
genomic: TGGGAAAAGCAGTAACATGCAATTACCTTCGCCAGGATAACTTTCTAGAGgtgatctagt ... tactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttttttttaaaaaaatcctcggtgaccttacaagtaaaatttactttgcagATAGATGTTGACATTGGTTCTTCATCCGTTGCACGGAGCATTATTGGTCTAGTCCTGGGATATGTCACAGGCCTTGTTGTTGATCTTGCTATTCTAATTG
                                           tttacttt  CT-rich tract
     tttttttaaaaaaatc  TA-rich tract