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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATATATGGTTGAGCTTTATCAGGATAATCTTGTGGACCTGTTGTTGGCCAAAAACGCAACACACCAAAAATTGGAAATAAAAAAGGATTCCAAGgtataggaccaagacatgttaaccttctttgttcttgcttcacacgttgtctgcttttgttgaagtctgttgattagaagaacaagttatgttcccattt...

Basic information

species Oryza sativa
transcript LOC_Os04g57140.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g57140.2 (Oryza sativa), 5'ss of exon 20
lower sequence: GRMZM2G423861_T02 (Zea mays), 5'ss of exon 19
GCATATATGGTTGAGCTTTATCAGGATAATCTTGTGGACCTGTTGTTGGCCAAAAACGCAACACACCAAAAATTGGAAATAAAAAAGGATTCCAAGgtataggac--caagacatgttaaccttctttgttcttgcttcacacgttgtctgcttttgttgaagtctgttgattagaagaacaagttatgttcccattt
 |||||||||| ||||||||||| ||||||||||||||||| |||||| ||| ||| |  |  |  | ||| || || |||||||| |||||||||||||   |   |    | | |  || |||  | |  |    | ||| |    |||  | |  | |      || ||| | | |     |||         ||
ACATATATGGTGGAGCTTTATCAAGATAATCTTGTGGACCTATTGTTGCCCAGAAATGTGAAGCCGCTAAAGTTAGAGATAAAAAAAGATTCCAAGgtattatatttcctttcctatatacgttcaatttgttgttcttacagggca-ctggatatact-accctactttatttgcatatttgattaccacttttctt

upper sequence: LOC_Os04g57140.2 (Oryza sativa), 5'ss of exon 20
lower sequence: GRMZM2G070273_T01 (Zea mays), 5'ss of exon 19
GCATATATGGTTGAGCTTTATCAGGATAATCTTGTGGACCTGTTGTTGGCCAAAAACGCAACACACCAAAAATTGGAAATAAAAAAGGATTCCAAGgtataggaccaagacatgttaaccttctttgttcttgcttcacacgttgtctgcttttgttgaagtctgttgattagaagaacaagttatgttcccattt--
||||||||||| ||||||||||| |||||||||||||||||||| ||| ||| ||| ||||  || |  || || || |||||||| |||||||||||||| ||   |      | |  | | | |    ||  || |   ||| |     |    || | | || | |    |        ||   |      ||  
GCATATATGGTGGAGCTTTATCAAGATAATCTTGTGGACCTGTTATTGCCCAGAAATGCAAAGCAGCTGAAGTTAGAGATAAAAAAAGATTCCAAGgtataagatttattttcctaattcctatattcatttaatttatttgttcttacagtgcactgga-tatgct-accctaccttttttttgcatatttgattac
















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|58656142|gb|CK044822.1|CK044822
EST:     TGGCCAAAAACGCAACACGCCAAAAATTGGAAATAAAAAAGGATTCCAAG                         GGGGTTGTTACTGTTGAAAATGTGACAGTTGTGAACATTTCAAGTTTTGAA
genomic: TGGCCAAAAACGCAACACACCAAAAATTGGAAATAAAAAAGGATTCCAAGgtataggacc ... ttccttttagGGGGTTGTTACTGTTGAAAATGTGACAGTTGTGAACATTTCAAGTTTTGAA