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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgtaggtgccatttgttaaatttagtcttctgataactcgcagaacctgtgccatttgctcaaggacttgagaagatggaaatagcttaactaatacacactgaatctggtcaacataatgcaaaatcttcattgccatactttcttaattatggtttatgatgacacag

Basic information

species Oryza sativa
transcript LOC_Os02g32570.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g32570.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G057504_T01 (Zea mays), 5'ss of exon 8
GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgtaggtgccatttgttaaatttagtcttctgataactcgcagaacctgtgccatttgctcaaggacttgagaagatggaaatagcttaactaatacacactgaatctggtcaacataatgcaaaatcttcattgccatactttcttaattatggtttatgatgacacag
|| |||||||||||||||||||| |||||||||||| ||||||| |||||||||||||||||||| |||| |||||| |||| |||||||||||| ||||||  ||          ||| ||  ||  | |||  | ||||  |  |            ||||||   || | | |  ||| | | ||| |    |  |  |      | |||| |   |  | |      |  |  ||    |   ||  | || ||    ||||      |||
GACCCTTGGTGGAATCCTGCTGTGGAAGAACAAGCTGTCATGCGCATCCATCGAATTGGTCAAACGAAGACTGTTTCTATCAGAAGATTCATCGTGAAGgtatctt----------ttttttgcatcaaatctcatcataatccagat-----------tttgct-ggggccattatcagaagaatata-cgaggcagacccttcgacattctgatgccccgattctcttgttattttttttttgtattggtcatgatataatatggccgtccag

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA17G05390.1 (Glycine max), 5'ss of exon 19
GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgtaggtgccatttgttaaatttagtcttctgataactcgcagaacctgtgccatttgctcaaggacttgagaagatggaaatagcttaactaatacacactgaatctggtcaacataatgcaaaatcttcattgccatactttcttaattatggtttatgatgacacag
|| || |||||||||||||||||||| ||||||||| | ||||| || ||||| ||||| ||||||||||  ||| |||| | | | || || || ||||||  ||  |  | |||  | |  ||  |  |   |  ||| ||| |||   | || | |||     |     || |   |    |  ||  |     | |    |                                                                      
GACCCATGGTGGAATCCTGCTGTTGAGGAACAAGCTGTTATGCGTATTCATCGTATTGGACAAACAAAGAAGGTTGCCATTAGACGGTTTATTGTGAAGgtatatttaatatcccaaatttggaaaatcatgcac--atatctcacagggtc-gtactatta---tatatttttaatcgggcccagttaattgcttcactgggta----------------------------------------------------------------------

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA12G30540.1 (Glycine max), 5'ss of exon 20
GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgtaggtgccatttgttaaatttagtcttctgataactcgcagaacctgtgccatttgctcaaggacttgagaagatggaaatagcttaactaatacacactgaatctggtcaacataatgcaaaatcttcattgccatactttcttaattatggtttatgatgacacag
|| || |||||||||||||||||||| ||||||||| | ||||| || ||||| ||||| ||||||||||  ||| |||| | | | || || || ||||||  ||         || |   |||||| |       || |  | || | | |      ||   | |   | ||   |    |  ||| |||| |||     |||   ||||||                                                             
GACCCATGGTGGAATCCTGCTGTTGAGGAACAAGCTGTTATGCGTATTCATCGTATTGGACAAACAAAGAAGGTTGCCATTAGACGGTTTATTGTGAAGgtatatt-------taatatcccaaatttggaa----aatcatgcacatatcttacatggttgctttatatatttttaa----gttaattgcttcactgg-gtacaagaaatctgc------------------------------------------------------------

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv06s0061g01190.t01 (Vitis vinifera), 5'ss of exon 19
GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgta--------ctttgtaggtgcca--tttgttaaatttag-tcttctgat--aactcgcagaacctgtgccatttgctcaaggacttgagaagatggaaatagcttaactaatacacactgaatctggtcaacataatgcaaaatcttcattgccatactttcttaattatggtttatgatgacacag
||||| ||||||||||| ||||| || ||||||||| | |||||||| ||||| ||||| |||||||| || ||    |||||  | ||||| || ||||||        ||   | | |  ||      | | ||  || | |||||    ||| | |  ||  | | || | || |||   ||| |  |   | | |||                                                                                       
GATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAGgtaacatcattctccttggcttgcagaccattcagatggagcttttctgccccaacccccctaa--tatcccctctggtcattcactagtaagagtagtaat---------------------------------------------------------------------------------------

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 5'ss of exon 12
lower sequence: PP1S41_174V6.1 (Physcomitrella patens), 5'ss of exon 19
GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgtaggtg--ccatttgttaa---atttagtct--tctgataactcgcagaacctgtgccatttg------ctcaaggacttgagaagatggaaatagctt--aactaatac-acac-tgaatctggtcaa-cataatgcaaaatcttcattgccatactttcttaattatggtttatgatgacacag--
||||| |||||||| || ||||| ||||| || || || |||||||| ||||| ||||||||||| ||   |||     | ||  | || || || ||||||| |   | ||    || || | ||   ||||  | |  | ||||   |      |   |||| | | |      || ||      || || ||     ||  ||  || | || | ||    ||||   ||    | || | || | |    |    | |   |||| |  |    | |    |||   |   
GATCCATGGTGGAACCCGGCTGTCGAAGAGCAGGCAATTATGCGGATACATCGCATTGGTCAAACCAAAGATGTCCAAGTTAAGCGGTTTATTGTAAAGgtacgtgaaatgtaattcaattttgaattgatttgatttgatttgatttatttttctaatcgtgcgaatggttaagcctgaaacgtgcgataatattatgctaattttcaaatgatgctacgtgcgaatacagtagttcttactacatagtagataactgcttgtgttctcagattctctatggtttgatgtacag

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 5'ss of exon 12
lower sequence: EFJ24758 (Selaginella moellendorffii), 5'ss of exon 7
GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgtaggtgccatttgttaaatttagtcttctgata-actcgcagaacctgtgccatttgctcaaggacttgagaagatggaaatagcttaactaatacacactgaatctggtcaacataatgcaaaatcttcattgccatactttcttaattatggtttatgatgacacag
|||||||||||||||||||| || ||||||||||| || ||| | ||||| || || || || ||  | |  || || |||||  ||||||||||||| |||  ||     | ||   ||  |   ||    |||| |   | |  || |                                                                                                                              
GATCCTTGGTGGAATCCTGCCGTGGAAGAACAAGCCATAATGAGAATCCACCGTATCGGCCAGACTCAAAACGTATCGATCAAGCGATTCATCGTCAAAgtaagtttccatttcctcctgaaacgcttgaaattcttagggagtttcacag-----------------------------------------------------------------------------------------------------------------------------

upper sequence: LOC_Os02g32570.2 (Oryza sativa), 5'ss of exon 12
lower sequence: EFJ15495 (Selaginella moellendorffii), 5'ss of exon 8
GATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgtaggtgccatttgttaaatttagtcttctgata-actcgcagaacctgtgccatttgctcaaggacttgagaagatggaaatagcttaactaatacacactgaatctggtcaacataatgcaaaatcttcattgccatactttcttaattatggtttatgatgacacag
|||||||||||||||||||| || ||||||||||| || ||| | ||||| || || || || ||  | |  || || || ||  ||||||||||||| |||  ||     | ||   ||  |   ||    |||||| | | |  || |                                                                                                                              
GATCCTTGGTGGAATCCTGCCGTGGAAGAACAAGCCATAATGAGAATCCACCGTATCGGCCAGACTCAAAACGTATCGATTAAGCGATTCATCGTCAAAgtaagtttccatttcctcctgaaacgcttgaaattctgagagagtttcacag-----------------------------------------------------------------------------------------------------------------------------

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|88197570|gb|CI197420.1|CI197420
EST:     ATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG                         GGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATG
genomic: ATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgta ... gatgacacagGGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATG
EST: gi|89178965|gb|CI043470.1|CI043470
EST:     ATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG                         GGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATG
genomic: ATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgta ... gatgacacagGGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATG
EST: gi|88837636|gb|CI078996.1|CI078996
EST:     ATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTTATCGTCAAG                         GGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATG
genomic: ATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgta ... gatgacacagGGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATG
EST: gi|86479033|gb|CI121666.1|CI121666
EST:     ATCGAATTGGTCAAACGAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG                         GGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATG
genomic: ATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgta ... gatgacacagGGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATG
EST: gi|89180507|gb|CI044786.1|CI044786
EST:     ATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG                         GGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATG
genomic: ATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAGgtactttgta ... gatgacacagGGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATG