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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgttagagaacctactttctatgagtatatgacccatttccttatttgtggagctgtactgttaaatcaatacattgtctgataataatttatctgcagGTTAAAGGTGCAGTGAAACTTAGTTTAAGAGAATATAAGCCCTCTGAACAGGTTTATAAAGGGATCCTTGATTGTGTCAAAACAATATACAGACAAAATG

Basic information

species Oryza sativa
transcript LOC_Os02g13300.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g13300.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G161299_T01 (Zea mays), 3'ss of exon 3
-------------------------------------------------------------------------------gtgttagagaacctactttct--atgagtatatgacccatttccttatttgtggagctgtactgttaaatc--aatacattgtctgataataatt-tatctgcagGTTAAAGGTGCAGTGAAACTTAGTTTAAGAGAATATAAGCCCTCTGAACAGGTTTATAAAGGGATCCTTGATTGTGTCAAAACAATATACAGACAAAATG
                                                                                |||     ||| || |||    || || || ||       |    |  | ||   || | || || | ||  ||||  ||      || | ||| | |  |||||| ||||||||||| |   |  |||| ||||||| ||||||||||||||||||||| ||||| ||| | |||||||| ||||||||||||||||||||||
gttggttcgaatccttcttgcatccttcgctaaactggaaaaccacacttctgttggaattcaagttacatttgctgtattgtgtatcaacataattttcgaataaggatttggttagcataagcacatatgtc-cttttcttttgattctcaatatctttctaattagttattgtctgcgcagGTGAAAGGTGCAGTCAGTGTGGGTTTCAGAGAATCTAAGCCCTCTGAACAGGTTTACAAAGGAATCATGGATTGTGTGAAAACAATATACAGACAAAATG
















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|300215830|gb|HO088456.1|HO088456
EST:     TCATATGCACATACCCTCTTGATCTAGTTCGCACAAAGTTGGCTTATCAG                         GTTAAAGGTGCAGTGAAACTTAGTTTAAGAGAATATAAGCCCTCTGAACAG
genomic: TCATATGCACATACCCTCTTGATCTAGTTCGCACAAAGTTGGCTTATCAGgttggtctta ... ttatctgcagGTTAAAGGTGCAGTGAAACTTAGTTTAAGAGAATATAAGCCCTCTGAACAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtggagctgtactgttaaatcaatacattgtctgataataatttatctgcagGTTAAAGGTGCAGTGAAACTTAGTTTAAGAGAATATAAGCCCTCTGAACAGGTTTATAAAGGGATCCTTGATTGTGTCAAAACAATATACAGACAAAATG
                                gtctgat  putative branch site (score: 4)
                                            tttatct  putative PPT
                                 tctgataataatttat  TA-rich tract