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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgccattacttctttctattttgcttgcttgctctttacaacacctctgattctaatactaattctaattggtttatgtagGTTGCTCTTGTAGCTTTAACTACCAATCCTTCTTTTCATGAACTTCTCTTGACAACTGTAAAAAAATGGCCACCTACATTATACTCCGCTTCACCTGTCA

Basic information

species Oryza sativa
transcript LOC_Os04g11880.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g11880.3 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G047675_T01 (Zea mays), 3'ss of exon 1
gtgccattacttctttctattttgcttgcttgctctttacaacacctctgattctaatactaattctaattggtttatgtagGTTGCTCTTGTAGCTTTAACTACCAATCCTTCTTTTCATGAACTTCTCTTGACAACTGTAAAAAAATGGCCACCTACATTATACTCCGCTTCACCTGTCA
|||   |     |||   | ||   || ||   |  |||  ||   |||| || |||||||| |||| |||   || |||||||||| ||||| ||| |||||| |||||||||||| ||||||||||||||||| ||| ||||||| |||||||| ||||||||||| || ||||| ||||
gtgtggtgctaacttgtaagttccattactaatt--ttaacacctatctg-ttgtaatacta-ttctgattttcttgtgtagGTTGCCCTTGTTGCTCTAACTATCAATCCTTCTTTCCATGAACTTCTCTTGACTACTATAAAAAATTGGCCACCGACATTATACTCAGCCTCACCGGTCA

upper sequence: LOC_Os04g11880.3 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G040247_T01 (Zea mays), 3'ss of exon 9
gtgccattacttctttctattttgcttgcttgctctttacaacacctctgattctaatactaattctaattggtttatgtagGTTGCTCTTGTAGCTTTAACTACCAATCCTTCTTTTCATGAACTTCTCTTGACAACTGTAAAAAAATGGCCACCTACATTATACTCCGCTTCACCTGTCA
|||   |     |||   | ||   || ||   |  |||  ||   |||| || |||||||| |||| |||   || |||||||||| ||||| ||| ||||||||||||||||||| ||||||||||||||||| ||| ||||||| |||||||| ||||||||||| || ||||| ||||
gtgtggtgctaacttgtaagttccattactaatt--ttaacacctatctg-ttgtaatacta-ttctgattttcttgtgtagGTTGCCCTTGTTGCTCTAACTACCAATCCTTCTTTCCATGAACTTCTCTTGACTACTATAAAAAATTGGCCACCGACATTATACTCAGCCTCACCGGTCA
















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|58675059|gb|CK063746.1|CK063746
EST:     TTCCTTACATACCTACAGAGAATCCTCAGCTGAGTGATACAGCTTACGAG                         GTTGCTCTTGTAGCTTTAACTACCAATCCTTCTTTTCATGAACTTCTCTTG
genomic: TTCCTTACATACCTACAGAGAATCCTCAGCTGAGTGATACAGCTTACGAGgtgccattac ... gtttatgtagGTTGCTCTTGTAGCTTTAACTACCAATCCTTCTTTTCATGAACTTCTCTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttgctctttacaacacctctgattctaatactaattctaattggtttatgtagGTTGCTCTTGTAGCTTTAACTACCAATCCTTCTTTTCATGAACTTCTCTTGACAACTGTAAAAAAATGGCCACCTACATTATACTCCGCTTCACCTGTCA
                       attctaatactaattc  TA-rich tract