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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagatagatttatgtaggctagccagaccttgtaaactcttatgttgactagatggtccttaaaatatctaagtttttattattattctgtatatttgagtatttgacctgtttgtttggtgttccag

Basic information

species Oryza sativa
transcript LOC_Os03g17980.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g17980.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
GGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagatag-atttatgtaggctagccagaccttgtaaactcttatgttgactagatggtccttaaaatatctaagtttttattattattctgtatatttgagtatttgacctgtttgtttggtgttccag
||| ||||||||||| ||||| ||||| ||||||||||| |||||||| |||||||||||||||||||||||||| ||||| || |||||||| || ||||||||| || | |||||| |  ||  || |||||| || |  |||  ||         || ||  |  |||      | |   | |  || |     |||                               
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtgagaaagcacttatgtggaata--caaaccttgcaa-caattagatt-------ctgttctggagttatgaccactctctatctggttttacggttttag-----------------------------

upper sequence: LOC_Os03g17980.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA18G49770.1 (Glycine max), 5'ss of exon 6
GGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagatagatttatgtaggctagccagacc--ttgtaaactcttatgttgactagatggtccttaaaatatctaagtttttattattattctgtatatttgagtatttgacctgtttgtttggtgttccag
 || ||||| ||||||||||| || ||  | ||||| || |||||||| || ||||| ||||||||||| ||||| || || || ||||| || ||||||||    |  |||||  |    |      |    |||     ||   ||||||||| ||      | ||| |||  ||               || | || ||  || ||  || | |               
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATGAAAATATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatttaattttatttatttaattaattgagtgatcggctgttgactacat------tcaaacatcccag-----------gccttggacatgtggataattttccagct---------------

upper sequence: LOC_Os03g17980.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA13G05700.1 (Glycine max), 5'ss of exon 5
GGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagatagatttatgtaggctagccagaccttgtaaactcttatgttgactagatggtccttaaaatatctaagtttttattattattctgtatatttgagtatttgacctgtttgtttggtgttccag
 || ||||| ||||||||||| || ||  | |||||||| || ||||| |||||||| ||||||||||| || || ||||| || |||||||| ||||||||   ||   |||   ||   ||   |    |  || | |    | ||   |  ||||   | |||  |   |   ||  |||      |  | |  |     |||                        
AGTAGATGTCTGGAGCTGTGGTGTAATTTTATATGCTCTTCTCTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCCAATCTCTTCAAAAAAATAAAGgtactat---ttttcttaatttaatta---ttattatatttcctttttctttttatgggtttcaaaggactgatagttaaatttcctaccactgtcgtgtcaaatt------------------------

upper sequence: LOC_Os03g17980.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
GGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagatagatttatgtaggctagccagaccttgtaaactcttatgttgactagatggtccttaaaatatctaagtttttattattattctgtatat-ttgagtatttgacctgtttgtttggtgttccag
 || ||||| ||||||||||| || ||  | ||||| || |||||||| |||||||| ||||||||||| || || || || || ||||| || ||||||||         || |  | | ||     |  || |    | ||   || |||   || ||       | ||||  | | |||||  | |    |    |||   || || |   |||              
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgta--------ttgttaatgtta-----attttat---ttatttaattaactgagtgatcagctgt-tgtctacatatatattaaaactgcccaggccttggacatatggctaattt--------------

upper sequence: LOC_Os03g17980.2 (Oryza sativa), 5'ss of exon 5
lower sequence: AT3G01090.2 (Arabidopsis thaliana), 5'ss of exon 5
GGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagatagatttatgtaggctagccagaccttgtaaactcttatgttgactagatggtccttaaaatatctaagtttttattattattctgtatatttgagtatttgacctgtttgtttggtgttccag
 || ||||| ||||||||||| ||||| || || ||||| || ||||| || ||||||||||||||||| || || |||||||| || || ||||||||||| | ||    |||      ||     | |  | | ||||  |   ||||        |  ||    ||| | | |||||  ||| |  ||     | | |   |||    |  |  ||| ||  |  ||
AGTAGATGTCTGGAGCTGTGGTGTGATACTCTACGCTCTTCTCTGTGGGACGCTTCCATTTGATGATGAAAACATTCCCAACCTTTTTAAGAAGATAAAGgt-acattctattactcctcctctttcgtctatttgaactaatgc-ttga-------attttt----tatttta-tttttcgtatcacccttcgactgtaaccttttttttttctcttttcgtcctatag

upper sequence: LOC_Os03g17980.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv14s0108g01230.t01 (Vitis vinifera), 5'ss of exon 5
GGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagatagatttatgtaggctagccagaccttgtaaactcttatgttgactagatggtccttaaaatatctaagtttttattattattctgtatatttgagtatttgacctgtttgtttggtgttccag
||| |||||||||||||| || || ||  | || ||||| ||||||||||||||||||||||||||||| || || |||||||| ||||| || ||||||||       ||||       |||     || |    |||| |||          |||  ||  |   || ||   | |  |||  | || | | |  ||     ||| |  | ||||||| |        
GGTGGATGTATGGAGCTGCGGTGTTATTTTGTACGCTCTTCTTTGTGGTACTCTTCCATTTGATGATGAAAACATTCCCAACCTTTTCAAGAAAATAAAGgt-------attt-------ctaaatttacttcactaactttta--------gcatgtgcc--agcttagctggatctgcattgctcttttttgtccttttactttttatttttttgtttagaa------

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|58667418|gb|CK056104.1|CK056104
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
EST: gi|29627233|gb|CB632244.1|CB632244
EST:     CTCTTCCATATGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCGAGTCATTTATCTGCTC
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTC
EST: gi|29663426|gb|CB659701.1|CB659701
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGG
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGG
EST: gi|117237395|gb|CT861888.1|CT861888
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCT
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCT
EST: gi|58666104|gb|CK054790.1|CK054790
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
EST: gi|58674982|gb|CK063669.1|CK063669
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
EST: gi|218482816|gb|FG952976.1|FG952976
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
EST: gi|218482252|gb|FG960526.1|FG960526
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
EST: gi|218502900|gb|FG954558.1|FG954558
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCACAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
EST: gi|2317303|gb|C22357.1|C22357
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
EST: gi|218484843|gb|FG952392.1|FG952392
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
EST: gi|29616519|gb|CB621531.1|CB621531
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTC
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTC
EST: gi|29614995|gb|CB620008.1|CB620008
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCCAGAGATTTG
EST: gi|33381730|gb|CF197073.1|CF197073
EST:     CTCTTCCATTTGATGATGAGAATATCCCCANCCTATTCAAAAAGATAAAG                         GNTNGTATATATACTCTNNNNNGTCATTTATCTGCTCTGGCC
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCCCAAGTCATTTATCTGCTCTGGCC
EST: gi|218488644|gb|FG955529.1|FG955529
EST:     CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAG                         GGTGGTATATATACTCTCC
genomic: CTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagataga ... ggtgttccagGGTGGTATATATACTCTCC