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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttactgcattatatgtcctcgctgcgatgctatggttttctaggtttattggttatatgtccttaggatttagcaatcaccaagctgtatattacttggttaacagGATGTTCCAACTGGTGAGCTCCCGAGGAATATGCTGCTGTCCGTAGACAGGCATCTTGTTCAGACCATTGTTCCTGGAACTAGATTAACTGTAATTGGTA

Basic information

species Oryza sativa
transcript LOC_Os02g55410.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g55410.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G450055_T01 (Zea mays), 3'ss of exon 5
gtttgttactgcattatatgtcctcgctgcgatgctatggttttctaggtttattggttatatgtcctta---ggatttagcaatcaccaag-ctgtat-attacttggttaacagGATGTTCCAACTGGTGAGCTCCCGAGGAATATGCTGCTGTCCGTAGACAGGCATCTTGTTCAGACCATTGTTCCTGGAACTAGATTAACTGTAATTGGTA
    |||| |    ||| | |||| | ||| |      |  |        | ||   ||  | | | ||    |  | | |   | |  | | | | || ||  |||  |   |||||||||||||| |||||||| || |||||||||||||| || ||||| || || || |||||||| || ||||| || || |||||||||||  |||| |
----gttagt-tgctatttatccttgatgcaagttgccgactcaaagcaatcatacatttcagggctttgctcgtgtcttgttgtaaatatgacagaatgatctctttttggccagGATGTTCCAACAGGTGAGCTTCCAAGGAATATGCTGCTTTCTGTAGATAGACACCTAGTTCAGACTATCGTTCCAGGGACCAGATTAACTGTCGTTGGCA

upper sequence: LOC_Os02g55410.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G075978_T01 (Zea mays), 3'ss of exon 5
gtttgttactg--cattatatgtcctcgctgcgatgctatggtttt----ctaggtttattggttatatgtccttaggatttagcaatcaccaagctgtatattacttggttaacagGATGTTCCAACTGGTGAGCTCCCGAGGAATATGCTGCTGTCCGTAGACAGGCATCTTGTTCAGACCATTGTTCCTGGAACTAGATTAACTGTAATTGGTA
||| | | ||   |||  |   | |  | |||   || |  ||  |     |  || | ||| |  | | |  ||   | |  | | | || | | | |   ||      |  |||||||||||||||||||||||| || |||||| ||||||| || ||||| ||||| || |||||||| |||||||| || ||||||||||||||  |||| |
gttagatgcttttcatccttgatgcaagttgccgagccaaagtgataagtttgagtgttttgttcgtgtcttgttgtaaatacg-actgacaatgatctcctttttggcatctacagGATGTTCCAACTGGTGAGCTTCCAAGGAATGTGCTGCTTTCTGTAGATAGGCACCTAGTTCAGACTATTGTTCCAGGGACTAGATTAACTGTTGTTGGCA
















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|58681178|gb|CK069865.1|CK069865
EST:     AGAGCAAGTATGTGGATCTCCAGACCCTCAAATTGCAGGAAAATCCTGAG                         GATGTTCCAACTGGTGAGCTCCCGAGGAATATGCTGCTGTCCGTAGACAGG
genomic: AGAGCAAGTATGTGGATCTCCAGACCCTCAAATTGCAGGAAAATCCTGAGgtttgttact ... tggttaacagGATGTTCCAACTGGTGAGCTCCCGAGGAATATGCTGCTGTCCGTAGACAGG
EST: gi|58671106|gb|CK059792.1|CK059792
EST:     AGAGCAAGTATGTGGATCTCCAGACCCTCAAATTGCAGGAAAATCCTGAG                         GATGTTCCAACTGGTGAGCTCCCGAGGAATATGCTGCTGTCCGTAGACAGG
genomic: AGAGCAAGTATGTGGATCTCCAGACCCTCAAATTGCAGGAAAATCCTGAGgtttgttact ... tggttaacagGATGTTCCAACTGGTGAGCTCCCGAGGAATATGCTGCTGTCCGTAGACAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttatatgtccttaggatttagcaatcaccaagctgtatattacttggttaacagGATGTTCCAACTGGTGAGCTCCCGAGGAATATGCTGCTGTCCGTAGACAGGCATCTTGTTCAGACCATTGTTCCTGGAACTAGATTAACTGTAATTGGTA
                                    tatattactt  TA-rich tract