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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgttctgcaaattgaactgaagaaatagcttaaaaaaatgttctcctatggtgtttcagttatatcaaatgacacatacagttaattacaattcttcagGTCAAAATATGAGTTACAAGAGTTTCTTGAGCCAAGCCTACGGATTGTTTCTCATCAGTCTAGCGACTCCGGGAAACATGCAGGCAGTGCCTCCCATTCT

Basic information

species Oryza sativa
transcript LOC_Os02g10480.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10480.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G138349_T04 (Zea mays), 3'ss of exon 1
-------------------------------------------------------------------------------------ttgttctgcaaa-ttgaactgaagaaatagcttaaa--aaaatgt-tctcctatggtgtttcagttatat----caaatgacacatacagttaattacaattcttcagGTCAAAATATGAGTTACAAGAGTTTCTTGAGCCAAGCCTACGGATTGTTTCTCATCAGTCTAGCGACTCCGGGAAACATGCAGGCAGTGCCTCCCATTCT
                                                                                     ||  | | |||  |||| ||| ||||     ||  |   ||  |  |   | ||  | |  | || |||       |   ||  |   |  || || || |  |||||||| ||||||||| | || || |||||  |||||||| | || ||||||||||||||| |||| ||||| || |||||||| || | ||| || ||||||
gtttgtggttatctggaaacgatttttttttcccaatggacacaagaaattttgccaagttctttgaagattggtgtctacttgttttctttccaagcttgatctgcagaaggcatttttattgaagcgcgtgatccatattctccctgtcataagttgtcagctaccgaagtatgtatttccattgtttcagGTCTAAATATGAGCTGCAGGAATTTCTGAAGCCAAGCTTGCGCATTGTTTCTCATCAGCCTAGTGACTCTGGAAAACATGCCGGAAATGCTTCTCATTCT
















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|87005483|gb|CI285705.1|CI285705
EST:     AGCAAGCCACATCCAGATTCTACCCAGGAAGAGCGAGAAAAATTCATCAG                         GTCAAAATATGAGTTACAAGAGTTTCTTGAGCCAAGCCTACGGATTGTTTC
genomic: AGCAAGCCACATCCAGATTCTACCCAGGAAGAGCGAGAAAAATTCATCAGgtattttatt ... aattcttcagGTCAAAATATGAGTTACAAGAGTTTCTTGAGCCAAGCCTACGGATTGTTTC
EST: gi|29645546|gb|CB650553.1|CB650553
EST:     AGCAAGCCACATCCAGATTCTACCCAGGAAGAGCGAGAAAAATTCATCAG                         GTCAAAATATGAGTTACAAGAGTTTCTTGAGCCAAGCCTACGGATTGTTTC
genomic: AGCAAGCCACATCCAGATTCTACCCAGGAAGAGCGAGAAAAATTCATCAGgtattttatt ... aattcttcagGTCAAAATATGAGTTACAAGAGTTTCTTGAGCCAAGCCTACGGATTGTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctatggtgtttcagttatatcaaatgacacatacagttaattacaattcttcagGTCAAAATATGAGTTACAAGAGTTTCTTGAGCCAAGCCTACGGATTGTTTCTCATCAGTCTAGCGACTCCGGGAAACATGCAGGCAGTGCCTCCCATTCT
                                   agttaat  putative branch site (score: 4)
                                               ttcttc  putative PPT
                                     ttaattacaattctt  TA-rich tract