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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTCCATCTCTATCTAGATTAACTTTCCCTTTTTTGGCAGCAATTACTCTCGTTCCAGCAGACATTATTATCACAGCTTGGTCAAAATCAACCTAGGCAgtgagtaactcttgttcaacagtacctgaattgcatctagctcatttatactgtatttctttcattatgtgtttgttaattatcttttgattttcttgattcag

Basic information

species Oryza sativa
transcript LOC_Os10g39620.5
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g39620.5 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G170843_T02 (Zea mays), 5'ss of exon 5
AGCTCCATCTCTATCTAGATTAACTTTCCCTTTTTTGGCAGCAATTACTCTCGTTCCAGCAGACATTATTATCACAGCTTGGTCAAAATCAACCTAGGCAgtgagtaactcttgttcaacagtacctgaattgcatctagctcatttatactgtatttctttcatta---tgtgtttgttaat--tatcttttgattttcttgattcag--------------------------------
                                         ||||||||||| || |||||||| ||||||  ||||||||||||| |||||||||| ||||||||  || | ||||||||||||||| ||| |||  | || ||| ||| | |||| ||| ||||    |||   |   |||  ||  || | ||| |  || |||                                  
-----------------------------------------CAATTACTCTCATTTCAGCAGACTTTATTAGGACAGCTTGGTCAACATCAACCTAGCCAgtgagtgtctatggttcaacagtacctggatttcattaatcttatt-atagtttattacttacatttgtttgtaactcgaaatggtacattgtaattattatgtttctaggggttccttttaattgtttgatttgattcag

upper sequence: LOC_Os10g39620.5 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G136769_T01 (Zea mays), 5'ss of exon 5
AGCTCCATCTCTATCTAGATTAACTTTCCCTTTTTTGGCAGCAATTACTCTCGTTCCAGCAGACATTATTATCACAGCTTGGTCAAAATCAACCTAGGCAgtgagtaactcttgttcaacagtacctgaattgcatctagctcatttatactgtatttctttcattatgtgtttgttaat-tatcttttgattttcttgattcag-------------------------------
                                         ||||||||||  || |||||| | ||||||  ||||||||||||| |||||||||  ||||||||   | | ||||||||||||||| ||| |||  |  | |||  || |   || | ||| ||      |||  | | ||   | ||||| |  || |||                                 
-----------------------------------------CAATTACTCTTATTTCAGCAGTCTTTATTAGGACAGCTTGGTCAACATCAACCTAACCAgtgagtgtttgtggttcaacagtacctggatttcattaatgttattattatttacttacattcgtttgtaacttgaaactgtacggtgtgattattatgtttcttggagttcctttaattgtttgatttgattcag
















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|27410200|gb|CA923270.1|CA923270
EST:     TCGTTCCAGCAGACATTATTATCACAGCTTGGTCAAAATCAACCTAGGCA                         GGATGGTAGCCAAGGAGGCAATGCGACAG
genomic: TCGTTCCAGCAGACATTATTATCACAGCTTGGTCAAAATCAACCTAGGCAgtgagtaact ... cttgattcagGGATGGTAGCCAAGGAGGCAATGCGACAG