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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATAAAACCAGGCTGCTCTACCGGATGTCTCTCGACTTCGCTCCATGGATCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccgaaaaattcagagcaacttcatactaaactgttgtccatctcatgtcattacagtttgcacctgactatagtatgcggttacctttgttttgcatactgtcctctatacaacatctataataatcttgtatgatctttctgcag

Basic information

species Oryza sativa
transcript LOC_Os10g41780.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G038487_T02 (Zea mays), 5'ss of exon 8
GAATAAAACCAGGCTGCTCTACCGGATGTCTCTCGACTTCGCTCCATGGATCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccgaaaaattcagagcaacttcatactaaactgttgtccatctcatgtcattacagtttgcacctgactatagtatgcggttacctttgttttgcatactgtcctctatacaacatctataataatcttgtatgatctttctgcag
    ||||| |||||||| ||||||||||| || ||||||||||| ||| |||||||||| ||  |||||||  | || ||||||||||| || |||||||   ||| |      |||  |  |        |||| |  |               ||||||        | | | ||| |||||| |    ||| ||   | | ||| ||  | |    |||||  ||  | |  |       || |||||
----AAAACTAGGCTGCTGTACCGGATGTCGCTAGACTTCGCTCCGTGGCTCAAGCATGTACCGCTCATGCACCTGCTGTGGTCACATTTCGCAGAGAAGGCATgtcag------tcaatgtga--------taaagtaat---------------ttacag-----gaattagtgtagaatgcggctggaattggttcagaaaatgttcttgacaa---atctaatatcttttcatggtggtcttgtgcag

upper sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G038487_T03 (Zea mays), 5'ss of exon 8
GAATAAAACCAGGCTGCTCTACCGGATGTCTCTCGACTTCGCTCCATGGATCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccgaaaaattcagagcaacttcatactaaactgttgtccatctcatgtcattacagtttgcacctgactatagtatgcggttacctttgttttgcatactgtcctctatacaacatctataataatcttgtatgatctttctgcag
||| ||||| |||||||| ||||||||||| || ||||||||||| ||| |||||||||| ||  |||||||  | || ||||||||||| || |||||||   ||| |      |||  |  |        |||| |  |               ||||||        | | | ||| |||||| |    ||| ||   | | ||| ||  | |    |||||  ||  | |  |       || |||||
GAACAAAACTAGGCTGCTGTACCGGATGTCGCTAGACTTCGCTCCGTGGCTCAAGCATGTACCGCTCATGCACCTGCTGTGGTCACATTTCGCAGAGAAGgcatgtcag------tcaatgtga--------taaagtaat---------------ttacag-----gaattagtgtagaatgcggctggaattggttcagaaaatgttcttgacaa---atctaatatcttttcatggtggtcttgtgcag

upper sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G038487_T01 (Zea mays), 5'ss of exon 8
GAATAAAACCAGGCTGCTCTACCGGATGTCTCTCGACTTCGCTCCATGGATCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccgaaaaattcagagcaacttcatactaaactgttgtccatctcatgtcattacagtttgcacctgactatagtatgcggttacctttgttttgcatactgtcctctatacaacatctataataatcttgtatgatctttctgcag
                      |||||||| || ||||||||||| ||| |||||||||| ||  |||||||  | || ||||||||||| || |||||||   ||| |      |||  |  |        |||| |  |               ||||||        | | | ||| |||||| |    ||| ||   | | ||| ||  | |    |||||  ||  | |  |       || |||||
----------------------CGGATGTCGCTAGACTTCGCTCCGTGGCTCAAGCATGTACCGCTCATGCACCTGCTGTGGTCACATTTCGCAGAGAAGGCATGTCAG------TCAATGTGA--------TAAAgtaat---------------ttacag-----gaattagtgtagaatgcggctggaattggttcagaaaatgttcttgacaa---atctaatatcttttcatggtggtcttgtgcag

upper sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G020309_T01 (Zea mays), 5'ss of exon 2
GAATAAAACCAGGCTGCTCTACCGGATGTCTCTCGACTTCGCTCCATGGATCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccgaaaaattcagagcaacttcatactaaactgttgtccatctcatgtcattacagtttgcacctgactatagtatgcggttacctttgttttgcatactgtcctctatacaacatctataataatcttgtatgatctttctgcag
||| ||||| |||||||| |||| |||||| || ||||||||||| ||| ||||||| || ||  |||||||  | || |||||||||||  | |||||||   ||| |      |||  |  |        |||| |  |            | ||   | ||        | | ||| |||||| |    ||| ||   | | ||| ||  | |    |||||  ||  | |  |       || |||||
GAACAAAACTAGGCTGCTGTACCAGATGTCGCTAGACTTCGCTCCGTGGCTCAAGCACGTACCGCTCATGCACCTGCTGTGGTCACATTTCACAGAGAAGgcacgtcag------tcaatgtga--------taaagtaat------------ttataggaatt--------agtgtagaatgcggctggaattggttcagaaaatgttcttgacaa---atctaatatcttttcatggtggtcttgtgcag

upper sequence: LOC_Os10g41780.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G171390_T04 (Zea mays), 5'ss of exon 7
GAATAAAACCAGGCTGCTCTACCGGATGTCTCTCGACTTCGCTCCATGGATCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccgaaaaattcagagcaacttcatactaaactgttgtccatctcatgtcattacagtttgcacctgactatagtatgcggttacctttgttttgcatactgtcctctatacaacatctataataatcttgtatgatctttctgcag
||| || ||||||||||| ||||||||||| || |||||||| || ||| ||||||| || ||  |||||||  | || ||||| ||||| || ||||||| |||||     |  |     |   | || ||| ||  |    ||  ||| ||   | | | | |      ||| || | |||  | |   | || |  |||                                                  
GAACAAGACCAGGCTGCTGTACCGGATGTCGCTGGACTTCGCGCCGTGGCTCAAGCACGTGCCGCTCATGCACCTGCTGTGGTCGCATTTCGCAGAGAAGgcgagtct----agcttgtctcttgtcca-actgaaacga-aaccgactcttgc--tcaaaatcta-----gaccat-gcatggtgctgtgtgtgctgcgcag-------------------------------------------------

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|23512851|gb|BU672866.1|BU672866
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|38471414|gb|CF955545.1|CF955545
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29613350|gb|CB618363.1|CB618363
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29613420|gb|CB618433.1|CB618433
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29671153|gb|CB667428.1|CB667428
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29617557|gb|CB622569.1|CB622569
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29628271|gb|CB633282.1|CB633282
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|38481220|gb|CF965309.1|CF965309
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29614577|gb|CB619590.1|CB619590
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29671986|gb|CB668261.1|CB668261
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|38472205|gb|CF956336.1|CF956336
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29617758|gb|CB622770.1|CB622770
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29671152|gb|CB667427.1|CB667427
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29613260|gb|CB618273.1|CB618273
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29618943|gb|CB623955.1|CB623955
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29616567|gb|CB621579.1|CB621579
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29672905|gb|CB669180.1|CB669180
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTCTTGAATGAGGATCTTCGACTCGTGTTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
EST: gi|29687020|gb|CB683295.1|CB683295
EST:     TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAG                         GTTTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC
genomic: TCAAGCATGTCCCTTTCATGCATATACTATGGTCACATTTTGCTGAGAAGgtgagtccga ... ctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATC