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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaacctcattgatgatttgcctttaccttgtgatctctccatttggaatgtctcttaacaggtaactttgctttgttttgaaaatttgttgtactctcagATATATATCAAGAAGCTGGTTTACCACTTTGGTTGCGACCCTATGAAGTTATCGTCACATCTGCATATACAGCGCTAATTGAGACTATTCCTGATACG

Basic information

species Oryza sativa
transcript LOC_Os11g10420.1
intron # 8
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 7
lower sequence: GRMZM2G176698_T01 (Zea mays), 3'ss of exon 8
gaacctcattgatgatttgcctttaccttgtgatctctccatttggaatgtctcttaacaggtaactt--tgctttgttttgaaaatttgttgtactc------tcagATATATATCAAGAAGCTGGTTTACCACTTTGGTTGCGACCCTATGAAGTTATCGTCACATCTGCATATACAGCGCTAATTGAGACTATTCCTGATACG
     |  ||||    |||  | | |  | | | | | ||    ||||| | | || |  ||||   |  |  |||||||      ||  ||  |||       |||||||||||||||||||||||||||||||| ||| |||| || |||||||| || || || || || |||||||| ||||||||||| || |||||||||
-----tttttgaatgcttg--tatgcactatta-cacaccggagggaatattttttcattggtatgctaattttttgtttctgctcttatttaaactgctgatgtcagATATATATCAAGAAGCTGGTTTACCACTATGGCTGCGGCCTTATGAAGTAATTGTTACTTCAGCTTATACAGCACTAATTGAGACCATCCCTGATACG
















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:     TGATTGCCGACAAGAACACCTAGCTGTACAGCTTGTTGCACACTTATATG                         ATATATATCAAGAAGCTGGTTTACCACTTTGGTTGCGACCCTATGAAGTTA
genomic: TGATTGCCGACAAGAACACCTAGCTGTACAGCTTGTTGCACACTTATATGgtaaaaaaat ... gtactctcagATATATATCAAGAAGCTGGTTTACCACTTTGGTTGCGACCCTATGAAGTTA
EST: gi|88852251|gb|CI374019.1|CI374019
EST:     TGATTGCCGACAAGAACACCTAGCTGTACAGCTTGTTGCACACTTATATG                         ATATATATCAAGAAGCTGGTTTACCACTTTGGTTGCGACCCTATGAAGTTA
genomic: TGATTGCCGACAAGAACACCTAGCTGTACAGCTTGTTGCACACTTATATGgtaaaaaaat ... gtactctcagATATATATCAAGAAGCTGGTTTACCACTTTGGTTGCGACCCTATGAAGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatgtctcttaacaggtaactttgctttgttttgaaaatttgttgtactctcagATATATATCAAGAAGCTGGTTTACCACTTTGGTTGCGACCCTATGAAGTTATCGTCACATCTGCATATACAGCGCTAATTGAGACTATTCCTGATACG
                                              tactctc  CT-rich tract
                          tttgttttgaaaattt  TA-rich tract