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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttgtgttctcttcagtgaaactcagtcttacctggaaaatgatttgcggtgaacttccctatatatgtgcagcctctaatccttaaataactttacagTGATATCCGTATACGAAGCAATATATCTTGTCCAGTTTCTCCATGTGGAAGTCCTTTGCTAAAATCAAGGTCCCCACAACATTCCAATGGCAGAATGTCA

Basic information

species Oryza sativa
transcript LOC_Os04g47240.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g47240.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G175504_T01 (Zea mays), 3'ss of exon 10
acttgtgttctcttcagtgaaactcagtcttacctggaaaatgatttgcggtgaacttccctatatatgtgcagcctctaatccttaaataac-----tttacagTGATATCCGTATACGAAGCAATATATCTTGTCCAGTTTCTCCATGTGGAAGTCCTTTGCTAAAATCAAGGTCCCCACAACATTCCAATGGCAGAATGTCA
     | |  | |        | | |  | |   || |     |   |     || ||  ||||| |||   ||  |||   |  ||| ||        || ||||||||| |  ||||||||||||| ||| |||||||||||||||||| | || ||  |||||||  | |||||||| |||||  | | ||||| |||||||
---cttttcatgtatgacagtatttatgcatgaatgcagtg-aaaaagaaaaaaaattatctatacatgca-agtttctgtcctgtaattattatcttcttgcagTGATATTCACATACGAAGCAATACATCCTGTCCAGTTTCTCCATGTCGGAGCCCCCTGCTAAAGGCGAGGTCCCCCCAACACACAAGTGGCAAAATGTCA
















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|568572|gb|D39421.1|D39421
EST:     GGTCAGACAATTTACCAGAGAAGAGGTGCAAAATTTTCTTCAAAACACAG                         TGATATCCGTATACGAAGCAATATATCTTGTCCAGTTTCTCCATGTGGAAG
genomic: GGTCAGACAATTTACCAGAGAAGAGGTGCAAAATTTTCTTCAAAACACAGgtacatcatt ... aactttacagTGATATCCGTATACGAAGCAATATATCTTGTCCAGTTTCTCCATGTGGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcggtgaacttccctatatatgtgcagcctctaatccttaaataactttacagTGATATCCGTATACGAAGCAATATATCTTGTCCAGTTTCTCCATGTGGAAGTCCTTTGCTAAAATCAAGGTCCCCACAACATTCCAATGGCAGAATGTCA
                                         aaataac  putative branch site (score: 2)
                                       ttaaataactttaca  TA-rich tract