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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGATGGAATGGAGCACTATTGCTTAGAGGGTAATCACATTGTCAACCTCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATACgtaagtttgcctctctctctctctctctctctctctctctctctctttctttcatcctctgcttaggcttgaaaatgctgatgtaagagtcaatattgag...

Basic information

species Oryza sativa
transcript LOC_Os01g08270.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g08270.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G029135_T01 (Zea mays), 5'ss of exon 8
GTATGATGGAATGGAGCACTATTGCTTAGAGGGTAATCACATTGTCAACCTCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATACgtaagtttgcctctctctctctctctctctctctctctctctctctttct------------ttcatcctctgcttagg-cttgaaaatgctgatg-taagagtcaatat-tgag-----------------------------
||||||||||||| |||||||||||||||| || | ||| ||||||||||||||||||||||| |||||||| ||||||||||| ||||||||||||||||| |||    | | ||||   | | |   |  ||    || |  |   ||               | |  ||  ||    ||||    ||||| || |||  | || | |   ||                             
GTATGATGGAATGAAGCACTATTGCTTAGAAGGCACTCATATTGTCAACCTCTTCTCATTCTCAAAGGCTTATGGAATGATGGGGTGGCGTGTAGGATACgtgagtgcatcacactcttcttttatgatttccttatgctttaccaccctggtgcggtggtgcctaccgactttttttttcttgctgctgctgctgctaattgccactgtactagtttagtcatacatgaaccgtctgctgcag

upper sequence: LOC_Os01g08270.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G107639_T01 (Zea mays), 5'ss of exon 8
GTATGATGGAATGGAGCACTATTGCTTAGAGGGTAATCACATTGTCAACCTCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATACgtaagtttgcctctctctctctctctctctctctctctctctctctttctttcatcct--ctgc--ttaggcttgaaaatgctgatgtaagagtcaatattgag---------------------------------------------
||||||||||||||||||||| |||||||| | |  ||| ||||||||||||||||| ||||| |||||||| ||||||||||| ||||||||||||||||| |||    |   ||||   | |  |  | |||    || |     |    || |||   |||   ||| |||     ||||  |           |  ||                                               
GTATGATGGAATGGAGCACTACTGCTTAGAAGATGCTCATATTGTCAACCTCTTCTCGTTCTCAAAGGCTTATGGAATGATGGGGTGGCGTGTAGGATACgtgagtgcatcatactcttcatttaccgttttcttatgctttacgcctaccccaacctgcttgcagctagacttttttttgctcctcctcctcctcctgctgttaattaccactgtaccagttagtcacacatgaactgtctgctgcag
















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|396941342|gb|HO188551.1|HO188551
EST:     TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATAC                         ATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
genomic: TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATACgtaagtttgc ... actgctgcagATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
EST: gi|25778100|gb|CA752852.1|CA752852
EST:     TCTTCTCATTCTCGAAGGCTTACGGAATGGTGGGCTGGCGTGTAGGATAC                         ATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
genomic: TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATACgtaagtttgc ... actgctgcagATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
EST: gi|84117682|gb|CD151449.1|CD151449
EST:     TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAAGATAC                         ATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
genomic: TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATACgtaagtttgc ... actgctgcagATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
EST: gi|58695451|gb|CK084138.1|CK084138
EST:     TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATAC                         ATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
genomic: TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATACgtaagtttgc ... actgctgcagATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
EST: gi|66913374|gb|CX100222.1|CX100222
EST:     TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAAGATAC                         ATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
genomic: TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATACgtaagtttgc ... actgctgcagATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
EST: gi|58690593|gb|CK079280.1|CK079280
EST:     TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATAC                         ATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG
genomic: TCTTCTCATTCTCGAAGGCTTACGGAATGATGGGCTGGCGTGTAGGATACgtaagtttgc ... actgctgcagATTGCCCACCCAAACGAAGCTGACGGTCTTCATGCACAGCTGCTCAAAGTG