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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGGAGTTCCTAAAACTGCAAGCAAGGATGAGCTAAAGAAGGCATACCGGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgtgccagtgtgacatgcaattgtttgaattcagaatctctattttgtttttacatttttatgtgttttacag

Basic information

species Oryza sativa
transcript LOC_Os04g46390.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g46390.1 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S174_97V6.1 (Physcomitrella patens), 5'ss of exon 1
TCTTGGAGTTCCTAAAACTGCAAGCAAGGATGAGCTAAAGAAGGCATACCGGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgtgc-cagtgtgacatgcaattg--tttgaattcagaatctctattttgtttttacatttt-tatgtgttttacag-------------------------------------------------
 ||||| ||   |||    |||     ||||||||| |||||||| ||| |||||||||| || || |||||||||||||| || || |||||||| |||||  || |  || |  | |||     | | |   |||| ||       | |    | | |  || |     |       | |||                                                 
CCTTGGGGTGGGTAAGGGCGCATCGCCGGATGAGCTTAAGAAGGCGTACAGGAAGGCTGCAATTAAGAACCATCCTGACAAAGGTGGAGATCCAGAGAAGgtagggctacgctctatttgattctgagtaggacttgagttttagccgtttgggat-tgtcgacgtgcagcacagaaggtgcagatgtgagatgttgttatagatgaactaagacgtagctttctctctgcag

upper sequence: LOC_Os04g46390.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ30223 (Selaginella moellendorffii), 5'ss of exon 1
TCTTGGAGTTCCTAAAACTGCAAGCAAGGATGAGCTAAAGAAGGCATACCGGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgtgccagtgtgacatgcaattgtttgaattcagaatctctattttgtttttacatttttatgtgttttacag
 ||||| ||  | ||   || |     ||| ||  | |||||||||||||||||||| ||||| || || || || ||||||||||| ||||| ||  |||| |||   |||          |    |||   || |||    ||| | | |  |   |    ||    ||| |   |||
CCTTGGCGTCTCCAAGGATGTATCGCCGGAGGATTTGAAGAAGGCATACCGGAAGGCCGCCATCAAGAATCACCCCGACAAGGGAGGCGATCCCGAGCAGgtaagg---tgc----------tttgtttgccggatttc----tcttt-tctcatgcctgggattgccggtgatccccag
















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|29678521|gb|CB674796.1|CB674796
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|29639999|gb|CB645008.1|CB645008
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|33694058|gb|CF322297.1|CF322297
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|218494200|gb|FG946885.1|FG946885
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|29680639|gb|CB676914.1|CB676914
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|29678572|gb|CB674847.1|CB674847
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|29643236|gb|CB648243.1|CB648243
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|29643291|gb|CB648298.1|CB648298
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|13807441|gb|AU181957.1|AU181957
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|29637040|gb|CB642049.1|CB642049
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|29668764|gb|CB665039.1|CB665039
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|14714017|gb|AU197958.1|AU197958
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|33657288|gb|CF279902.1|CF279902
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|29663531|gb|CB659806.1|CB659806
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|29614042|gb|CB619055.1|CB619055
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|33657059|gb|CF279673.1|CF279673
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|88352585|gb|CI624524.1|CI624524
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
EST: gi|33657234|gb|CF279848.1|CF279848
EST:     GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAG                         TTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA
genomic: GGAAGGCTGCCATAAAAAACCATCCTGACAAGGGAGGGGATCCAGAAAAGgtgaggatgt ... tgttttacagTTTAAAGAATTATCACAAGCGTATGAGGTTCTCACTGATCCTGAGAAGAGA