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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCCTGGATCTTTCAAGGATTGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaggtctctcagttgaagggaaagaacaattatctttccaatgtagaacattagttaattgtatttttttatcatcgcacttgccttagtttattt...

Basic information

species Oryza sativa
transcript LOC_Os04g52370.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52370.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G019986_T04 (Zea mays), 5'ss of exon 2
AGCCTGGATCTTTCAAGGATTGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaggtctctcagttgaagggaaagaacaattatctttccaatgtagaaca-ttagttaattgtatttttttatca-tcgcacttgccttagtttattt----
|| || || ||||||||||| ||||||||||||||||||||||||||||| |||||||||||||              | ||||| | |  |   ||||| |||||||  || || |  || || | |   | | |          | |    | |     
AGTCTAGACCTTTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCGCAAGgtgagaggt--------------ggaagaatattcgttgctccaaggtagaacgctttgtcacgtgaatatgtaactgagttatgtggtgttcatcccaatcacag

upper sequence: LOC_Os04g52370.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G044629_T01 (Zea mays), 5'ss of exon 2
AGCCTGGATCTTTCAAGGATTGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaggtctctcagttgaagggaaagaacaattatctttccaatgtagaaca-ttagttaattgtatttttttatcatcgcacttgccttagtttattt--------------------
||||| || || |||||||| |||||||||||||||||||||||||||||||||||||||| |      || || |||||  ||| | |  |   |||||||||||||  || || |  || || |||   |       ||         |||| |                    
AGCCTAGACCTCTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaag----agaggtggagggag-gaatattcgttgctccaatgtagaacgctttgtcacgtgcatctttagctgggtatcctcagacagagttatgtggtgttcatcccaatcacag
















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|58674987|gb|CK063674.1|CK063674
EST:     CTTGTGATCACAATG                         GATTCACTTTGCCCACCGTCGAGCCGGTGCCGGAGTCCAGCGTGTCCAAG
genomic: CTTG-GATCACAA-Ggtgagaggtc ... ctaagtgcagGATTCACTTTGCCCACCGTCGAGCCGGTGCCGGAGTCCAGCGTGTCCAAG
EST: gi|58676295|gb|CK064982.1|CK064982
EST:     TCTTTCAAGGATTGATCGGATCATCCGGCGCTCCCTTGGATCACAAT                         GATTCACTTTGCCCACCGTCGAGCCGGTGCCGGAGTCCAGCGTGTCCAACG
genomic: TCTTTCAAGGATTGATCGGATCATCCGGCGCTCCCTTGGATCACAAGgtgagaggtc ... ctaagtgcagGATTCACTTTGCCCACCGTCGAGCCGGTGCCGGAGTCCAGCGTGTCCAAGG