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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttggactagtagtgaattactctcttggttattgtgacatctccaagttcaatggtcttatttagccatgtaaatttgtacgcttcagGTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATTATACTACTAGTAGAAATGTTGCAG

Basic information

species Oryza sativa
transcript LOC_Os11g10420.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g10420.2 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G176698_T01 (Zea mays), 3'ss of exon 13
gtatttggactagtagtgaattactctcttggttattgtgacatctccaagttcaatggtcttatttagccatgtaaatttgtacgcttcagGTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATTATACTACTAGTAGAAATGTTGCAG
     |  | ||   | || |  ||   ||||||  || ||| | ||     |  |    || || ||   || |   |||||     |||||| |||||||||||||| |||||||||||||||||||||||||| ||||||||||| || || ||||||||||||
----gtatattaaatgagactcccttggttggttgctgggacttttcatttctttacaagct-atatattaatttgtgtttgt-----tcagGTGCTATGCATTCAAGGTTTCCTTACTTGCCGGAAGCATGCAGAACGTATTATACTTCTTGTGGAAATGTTGCAG

upper sequence: LOC_Os11g10420.2 (Oryza sativa), 3'ss of exon 12
lower sequence: PP1S263_81V6.1 (Physcomitrella patens), 3'ss of exon 13
----------------------gtatttggactagtagtgaattactct--cttggttatt--gtgacatct--ccaagttcaatggt--cttatttagccatgtaaatttgtacgcttcagGTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATTATACTACTAGTAGAAATGTTGCAG
                       ||||| |  | ||||  ||||  | |  ||| ||  ||   |  | |||  |  || | | || |   ||||| | |   |  | |||||  | |||||||| | ||||||||||| || || || ||||||||||||||||| || || |||||||| || || ||| |||||
gtatccaccagtttcttgcaaaatattttgg-tggtagccaattcttttatctttgtcctttgattccttctttctgagctaactgatactttattgaactgggctactttgtttg-ttcagGTTTTGTGCATTCAAGGATTTCTGACATGCCGGAAGCATGCAGAACGCATCATACTACTTGTGGAGATGATGCAG
















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|29682738|gb|CB679013.1|CB679013
EST:     TGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAG                         GTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATT
genomic: TGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAGgtatttggac ... tacgcttcagGTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATT
EST: gi|428172|gb|D24320.1|D24320
EST:     TGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAG                         GTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATT
genomic: TGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAGgtatttggac ... tacgcttcagGTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgacatctccaagttcaatggtcttatttagccatgtaaatttgtacgcttcagGTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATTATACTACTAGTAGAAATGTTGCAG
                                  atgtaaattt  TA-rich tract