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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGGGTGAACGTAAGAACTTGCGAAGAAAAGAGAAGCGTGCTCGGATAGAGCAAATTCGGGTTATGCTCGGTCTTTCTGATTCTCAAAGGACTCCAATGgtgatgttgtaatcaacattttttttgttctaaatttgtttgaagttgttccgacaaagtacatatactttgtttactcagaggaactcttggctgataatttgttacacacagttaacaattaaaaccatatatcactaattcccatattcacacttttaaag

Basic information

species Oryza sativa
transcript LOC_Os04g40740.3
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g40740.3 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G100815_T01 (Zea mays), 5'ss of exon 14
AAAGGGTGAACGTAAGAACTTGCGAAGAAAAGAGAAGCGTGCTCGGATAGAGCAAATTCGGGTTATGCTCGGTCTTTCTGATTCTCAAAGGACTCCAATGgtgatgttgtaatcaacatt-----ttttttgt----tctaaatttgtttgaagttgttccgacaaa--------gtacatatactt---tgtttactca-gaggaactcttggctgataatttgttacacacagttaacaa--ttaaaaccatatatcactaat--tcccatattcacacttttaaag
 ||||||||| |||||| | |||| |||||||||||||||||||||||||| || ||  |||| || || || |||||||||||||||||||||||| |||| |||||||| | |   ||     |||| |||    |||| |||| ||        || |   |          || |||||  |    ||| |  ||  ||  || || ||||  |  ||| |||||   ||||||||||    || |   | | |  || ||  |  | | |    | | | ||||
GAAGGGTGAAAGTAAGACCATGCGTAGAAAAGAGAAGCGTGCTCGGATAGAACAGATCAGGGTCATCCTTGGCCTTTCTGATTCTCAAAGGACTCCAGTGgtaatgttgtacttagttttgtttattttctgtcacttctagatttattgctttccttttcattagctggctcctgtccatatcatcatatgtctgttctcgaacaaatcatggccaaccattcgttacctgcagttaacaaaaccaagatattgttttgcttatattttcttttgtttattctgaaag
















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|86534966|gb|CI175172.1|CI175172
EST:     AAGGACTCCAATG                         CCAGGAGAGTCACTAAAAGATTTCTACAAGAGAACGGATATGTACTGGCAG
genomic: AAGGACTCCAATGgtgatgttgt ... acttttaaagCCAGGAGAGTCACTAAAAGATTTCTACAAGAGAACGGATATGTACTGGCAG
EST: gi|89175699|gb|CI042720.1|CI042720
EST:     GGTTATGCTCGGTCTTTCTGATTCTCAAAGGACTCCAATG                         CCAGGAGAGTCACTAAAAGATTTCTACAAGAGAACGGATATGTACTGGCAG
genomic: GGTTATGCTCGGTCTTTCTGATTCTCAAAGGACTCCAATGgtgatgttgt ... acttttaaagCCAGGAGAGTCACTAAAAGATTTCTACAAGAGAACGGATATGTACTGGCAG