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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagatttttacgatatccacagtatttatttttgtgaaacctggtcacttcaagtaactagttgaatattacacaaaaattctttgttgttcaacagGAAATCGAGGCTCTAGATCCCTGTCACCAATGCTTGGACTATTGGTTGTCAAGGGTTTCTTCTGTTGGAACTGAACTCCCCTCGGAATCTGTGATGGCAG

Basic information

species Oryza sativa
transcript LOC_Os05g23670.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g23670.1 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G044301_T01 (Zea mays), 3'ss of exon 8
gtagatttttacgatatccacagtatttatttttgtgaaacctggtcacttcaagtaactag---ttgaatattacacaaaaattc-tttgttgttcaacagGAAATCGAGGCTCTAGATCCCTGTCACCAATGCTTGGACTATTGGTTGTCAAGGGTTTC-----TTCTGTTGGAACTGAACTCCCCTCGGAATCTGTGATGGCAG
||| |||||   || | | | | | ||| ||||   ||||  |||| ||||  || | |  |   |  ||||| ||| | ||||||  || ||  |||| |||||||||||||||||||||||  |||||| || || ||||| ||||| || | |  | |     |||    |  | |||   | | |  ||| |||  |      
gta-attttagtgagaccaagaatgtttctttt---gaaagttggtaacttttagcaccaggaactataatataacaaagaaattcacttattcatcaatagGAAATCGAGGCTCTAGATCCCCATCACCAGTGTTTAGACTACTGGTTATCGAAGTCTGCAGTAGTTCCTGCGTCAATGAGGACACTTGAGAAGCTGCCAA-----
















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|66923253|gb|CX110101.1|CX110101
EST:     CTTTGAATGGACTTGAAATGTTTGGGTTCTTATCCTCCCCTATAATTAAG                         GAAATCGAGGCTCTAGATCCCTGTCACCAATGCTTGGACTATTGGTTGTCA
genomic: CTTTGAATGGACTTGAAATGTTTGGGTTCTTATCCTCCCCTATAATTAAGgtagattttt ... tgttcaacagGAAATCGAGGCTCTAGATCCCTGTCACCAATGCTTGGACTATTGGTTGTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtcacttcaagtaactagttgaatattacacaaaaattctttgttgttcaacagGAAATCGAGGCTCTAGATCCCTGTCACCAATGCTTGGACTATTGGTTGTCAAGGGTTTCTTCTGTTGGAACTGAACTCCCCTCGGAATCTGTGATGGCAG
         aagtaac  putative branch site (score: 2)
                                     ttctttgtt  putative PPT
                      aatattacacaaaaat  TA-rich tract