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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggatgcttcctgttttccgattgccgtttcattaccatatgtatttgttagctttgtccttactgtaactattttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAATCTGAGACCAGGGGATATGTTTGCAACTGGCACACTAAGCGGACCT

Basic information

species Oryza sativa
transcript LOC_Os02g10310.3
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g10310.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G093359_T01 (Zea mays), 3'ss of exon 11
----------------------------------------------------gtaaggatgcttcctgttttccg-attgc-cgtttcattaccatatgtatttgttagctttgtccttactgtaactattttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAATCTGAGACCAGGGGATATGTTTGCAACTGGCACACTAAGCGGACCT
                                                        |||||   ||  |   ||  | |||   |    || ||||| | |  |   |  |    | ||  || ||| | |||  | ||||||||||||  | || ||||| ||| ||||||||||| | |||||||||||  |||| || |||||||| ||||||||||||||||| || ||||||
gtaagtacactgctgattcggttttttttcactttaaatgctcatgtgttttagttggatgtaacccatcaaccatactgcatatgattttgccata-gcacataaca-ttggcacattgttgaaaccaatttc-cacagGTATTGGACGGTGACGCAGCAGCTAACACACCACACTATCAATGGATGCAACATGAGGCCGGGGGATATATTTGCAACTGGCACACTCAGTGGACCT

upper sequence: LOC_Os02g10310.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G093359_T02 (Zea mays), 3'ss of exon 10
gtaaggatgcttcctgttttccg-attgc-cgtttcattaccatatgtatttgttagctttgtccttactgtaactattttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAATCTGAGACCAGGGGATATGTTTGCAACTGGCACACTAAGCGGACCT
    |||||   ||  |   ||  | |||   |    || ||||| | |  |   |  |    | ||  || ||| | |||  | ||||||||||||  | || ||||| ||| ||||||||||| | |||||||||||  |||| || |||||||| ||||||||||||||||| || ||||||
----ggatgtaacccatcaaccatactgcatatgattttgccata-gcacataaca-ttggcacattgttgaaaccaatttc-cacaggtattggacggtgacgcagCAGCTAACACACCACACTATCAATGGATGCAACATGAGGCCGGGGGATATATTTGCAACTGGCACACTCAGTGGACCT

upper sequence: LOC_Os02g10310.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G029566_T01 (Zea mays), 3'ss of exon 11
---------------------------------------------------------------------------------------gtaaggatgcttcctgttttccgattgc-cgtttcattaccatatgtatttgttagctttgtc---cttactgtaactattttttcc-cagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAATCTGAGACCAGGGGATATGTTTGCAACTGGCACACTAAGCGGACCT
                                                                                       || |  | | | ||   | | | |        |   || ||||| | |  |   ||   || |    ||  |||||| | ||||| | ||||||||||||  | |||||||| ||||||||||||||  | || ||||||||  |||| || |||||||| ||||| ||||||||||| || ||||||
gtaagcacactgcatattcgtttttttttcactttaaatactaacgtgtgctcctgcaccgttcgagaaaaagaaatactaatgtgtgttaataggatcccaactattcaaccatataatgttttgccata-gcacataacagtgctggcacatttcttgtaaccaatttttgcacagGTATTGGACGCTGACACAGCAGCTAGCACACCACACCATCAACGGATGCAACATGAGGCCGGGGGATATATTTGCGACTGGCACACTGAGTGGACCT

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|29660372|gb|CB656647.1|CB656647
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAATTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|29672587|gb|CB668862.1|CB668862
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|29612852|gb|CB617865.1|CB617865
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|29657905|gb|CB654180.1|CB654180
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|86599975|gb|CI258315.1|CI258315
EST:     AGGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTGACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: A-GGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|29671043|gb|CB667318.1|CB667318
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCANNNNNNNNTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|163929432|gb|EG713401.1|EG713401
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|117232667|gb|CT861058.1|CT861058
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|29637362|gb|CB642371.1|CB642371
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|88904130|gb|CI006363.1|CI006363
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|29672144|gb|CB668419.1|CB668419
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|88691997|gb|CI735572.1|CI735572
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|29636552|gb|CB641561.1|CB641561
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|29636597|gb|CB641606.1|CB641606
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|86496229|gb|CI138862.1|CI138862
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|29664840|gb|CB661115.1|CB661115
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|88690598|gb|CI734677.1|CI734677
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|88223961|gb|CI223810.1|CI223810
EST:     AGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|86433902|gb|CI094245.1|CI094245
EST:     GAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: GAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
EST: gi|27548667|gb|CA766758.2|CA766758
EST:     AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCT                         GTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA
genomic: AAGGAGCAAAGTGAACCATCAATGGTTGCAAAGAGTAACTTCAAGCATCTgtaaggatgc ... tttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcattaccatatgtatttgttagctttgtccttactgtaactattttttcccagGTATTGGACTTTAACACAGCAACTAGCACACCACACTGTTAATGGATGCAATCTGAGACCAGGGGATATGTTTGCAACTGGCACACTAAGCGGACCT
                                         ctattttttccc  CT-rich tract
         atatgtatttgtta  TA-rich tract