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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgagctaatttcttactgcatatatccctcccaccagcatacttttttagtttctgttatatttgctgacttcacatgttgtaacacatctcatgtagCTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCCGTGCAACCTGTACAGAATATACAATATTTATGAGTGCTGACAATACATC

Basic information

species Oryza sativa
transcript LOC_Os12g06630.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g06630.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G001272_T01 (Zea mays), 3'ss of exon 3
tgtgagctaatttcttactgcatatatccctcccaccagcatacttttt----tagtttctgt-tatatttgctgac-ttcacatgttgtaacacatctcatgtagCTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCCGTGCAACCTGTACAGAATATACAATATTTATGAGTGCTGACAATACATC
       |  ||  |   |  |||||| || |   |   | | ||| ||     | ||| ||| | | | ||||     | ||||  ||||||  || |  |  ||||||||| ||||||||||||||||||||  |||  |||||| |   ||||||  |||||||||||||||||||||||||||||| | |||| |||  |||
------ttccttaatatttagatatattccacttgcagacctgcttcttggtacattttttgtctgtctctgctactactaacataatgtaacctattttctacagCTGTGCTTGTTGAAAGTGGCAAGTTCCTCCTATGTGCGAAACGGACCTCCCGCCCAACCTGTACAGAATATACAATATTTATGAATTCTGAAAATTTATC
















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|33381574|gb|CF196917.1|CF196917
EST:     AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAG                         CTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
genomic: AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAGgtaagccttt ... tctcatgtagCTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
EST: gi|33810127|gb|CF330953.1|CF330953
EST:     AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAG                         CTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
genomic: AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAGgtaagccttt ... tctcatgtagCTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
EST: gi|58672719|gb|CK061405.1|CK061405
EST:     AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAG                         CTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
genomic: AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAGgtaagccttt ... tctcatgtagCTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
EST: gi|58656494|gb|CK045174.1|CK045174
EST:     AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAG                         CTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
genomic: AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAGgtaagccttt ... tctcatgtagCTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
EST: gi|58680304|gb|CK068991.1|CK068991
EST:     AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAG                         CTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
genomic: AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAGgtaagccttt ... tctcatgtagCTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
EST: gi|11170889|gb|AU163519.1|AU163519
EST:     AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAG                         CTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC
genomic: AAGGGATAAATCTACCCAAACTTACAACCTATATCTATGTCTTAGCTCAGgtaagccttt ... tctcatgtagCTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttagtttctgttatatttgctgacttcacatgttgtaacacatctcatgtagCTGTGCTCGTTGAAAGTGGCAAGTTCCTTTTATCGGCGAAAAGATACTCCCGTGCAACCTGTACAGAATATACAATATTTATGAGTGCTGACAATACATC
                                   ttgtaac  putative branch site (score: 2)
       tttctgttatattt  TA-rich tract