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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCACTATCTGGCAAAACCAAGACATACTTTGCTACGGCTGTTTCATTGTGGGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctccatatcttttatgcccttctattgttcttttttgaacattttatcgatcttaagatgagaggaaagtgatcatatctgtgtgccgccatca...

Basic information

species Oryza sativa
transcript LOC_Os02g06840.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G132866_T02 (Zea mays), 5'ss of exon 6
GCACTATCTGGCAAAACCAAGACATACTTTGCTACGGCTGTTTCATTGTGGGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaa-tctccatatc--ttttatgcccttctattgttcttttttgaacattttatcgatcttaagatgagaggaaagtgatcatatctgtgtgccgccatca
||| | || |||||||||||||| ||||||||||| ||||||||| | ||||| || ||||||||||| |||||||| ||||| || ||||| |||||||||||  || || |      || | || ||| |  || ||||   | |  |||||     ||||    |        | |    |||    |  |||     | 
GCATTGTCAGGCAAAACCAAGACCTACTTTGCTACAGCTGTTTCACTATGGGACGCCGACTTTTATGTTAAGGTTGACGATGATGTCCATGTGAACATAGgtaatctccccgtgagaacttcacgctctt-tgctgatcttcagttagaattttggaactcttgtt-tacttttcgaatttcgataatcataggccatttcc-

upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA12G31980.1 (Glycine max), 5'ss of exon 7
GCACTATCTGGCAAAACCAAGACATACTTTGCTACGGCTGTTTCATTGTGGGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctccatatcttttatgcccttctat-tgttcttttttgaacattttatcgatcttaagatgagaggaaagtgatcatatctgtgtgccg-ccatca---------------------------------------------------------------------------------------------
| | | || |  || || |||||||||||||| || ||||||   || |||||||| ||||| ||| | || |||||||| || || |||||||| ||||||| ||    |  |  |  ||  |    ||| |   |||   |||  | |||     |   |   |   |      | |  |  ||    | |   | ||||                                                                                             
GAATTGTCAGCAAAGACAAAGACATACTTTGCCACTGCTGTTAACTTATGGGATGCTGACTTCTATATCAAAGTTGATGACGATGTTCATGTAAATATAGgtatata--aagtttctcaatctctaattatctaaccttgcatgaggagtttgcaattgaaattgttgtatccttttaactagttccacatactaactatcatccatggattcatgttccgtacatacttagtatgcatcatgtaatttctatcttaatatttttcttagtatgccctattcaatcctttttcag

upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT2G32430.1 (Arabidopsis thaliana), 5'ss of exon 7
GCACTATCTGGCAAAACCAAGACATACTTTGCTACGGCTGTTTCATTGTGGGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctccatatcttt-tatgcccttctattgttcttttttgaacattttatcgatcttaagatgagaggaaagtgatcatatctgtgtgccgccatca
|   |||| |||||||| || ||||| ||| |||| ||||||||   |||||||||||| || ||||| || || |||||||| || |||||||| || |||||        |||||  ||    |   |  | ||      |    || ||    |  | || |     |  || || |    |     |  |  ||   
GAGTTATCAGGCAAAACGAAAACATATTTTTCTACAGCTGTTTCGAAGTGGGATGCAGAGTTCTATGTCAAAGTAGATGATGATGTTCATGTAAATATCGgtaagctgaacaatcttcctacattcaatttctatttcccagtttgtatgttgctcacatcaataacgtggtcaattgttttgttgaaaatatctgcag--

upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT4G26940.1 (Arabidopsis thaliana), 5'ss of exon 7
GCACTATCTGGCAAAACCAAGACATACTTTGCTACGGCTGTTTCATTGTGGGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctccatatcttttatgcccttctattgttct-tttttgaacattttatcgatcttaagatgagaggaaagtgatcatatctgtgtgccgccatca
|  || || |  || || || || |||||| | |||||| || || |||||||||||||||| || || || || |||||||| ||||||||||| |||||| ||| |  |     || | |    |  |||||| | ||| |   ||| | |    | |     |  |   |      ||||   | | | | ||     
GAGCTGTCAGCAAAGACTAAAACTTACTTTACCACGGCTTTTGCAATGTGGGATGCAGACTTCTACGTCAAAGTCGATGATGATGTGCATGTAAATATAGgtgaatataaactctcttaaagtatctgaattgttttgtttcttgtcatctca--agtttgtgcctttgctcacttctgtcatggatattt-ctgcag---

upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 5'ss of exon 7
GCACTATCTGGCAAAACCAAGACATACTTTGCTACGGCTGTTTCATTGTGGGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctccatatcttttatgcccttctattgttcttttttgaacattttatcgatcttaagatgagaggaaagtgatcatatctgtgtgccgccatca------
| ||| |||| ||| || |||| ||| |||||||| |||||| | |||||||||||||| || ||  | || ||||||||||| || |||||||| |||||||    || | || | |||  | ||  ||| | | | |||||    | | ||| ||  |||  ||| | |      |   ||  | |        ||        
GAACTGTCTGCCAAGACAAAGATATATTTTGCTACTGCTGTTGCTTTGTGGGATGCAGAGTTCTACATTAAAGTTGATGATGATGTCCATGTAAATATAGgta----tcta-atatgttaatctctattat-gatttcttttgtgggtgtcatccataataatctgaaaagtcttataatttagttttcctttcttattttagata

upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv19s0090g00560.t01 (Vitis vinifera), 5'ss of exon 7
GCACTATCTGGCAAAACCAAGACATACTTTGCTACGGCTGTTTCATTGTGGGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctccatatcttttatgcccttctattgttcttttt-tgaacattttatcgatcttaagatgagaggaaagtgatcatatctgtgtgccgccatca
| | |||| |  || || ||| ||||||| || || |||||| |  ||||||||||||| || ||||| || || |||||||| || |||||||| |||||||||  | ||  | ||   |   ||||     | ||| ||  | | ||   ||| || ||||  |        |||  |    ||  | |      |  |
GAATTATCAGCAAAGACGAAGGCATACTTCGCCACTGCTGTTGCTATGTGGGATGCAGATTTCTATGTCAAAGTAGATGATGATGTCCATGTAAATATAGgtaaagatgcagttattgactaatcttcccccttgcttgttgcgtatatagcatc-attttaaattattttctcagtattttcttccattttttagtagta

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|29682551|gb|CB678826.1|CB678826
EST:     GGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCACGTAAACATAG                         CAACACTTGGCCAGATTTTATCTAATCATGCATTGAAGCCCAGAGTATATA
genomic: GGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctcc ... gcttttgcagCAACACTTGGACAGATTTTATCTAATCATGCATTGAAGCCCAGAGTATATA
EST: gi|2799316|gb|AA752305.1|AA752305
EST:     GGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAG                         CAACACTTGGACAGATTTTATCCAACCATGCATTGAAGCCCAGAGTATATA
genomic: GGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctcc ... gcttttgcagCAACACTTGGACAGATTTTATCTAATCATGCATTGAAGCCCAGAGTATATA
EST: gi|2799246|gb|AA753771.1|AA753771
EST:     GGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAG                         CAACACTTGGACAGATTTTATCCAACCATGCATTGAAGCCCAGAGTATATA
genomic: GGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctcc ... gcttttgcagCAACACTTGGACAGATTTTATCTAATCATGCATTGAAGCCCAGAGTATATA
EST: gi|29657303|gb|CB653578.1|CB653578
EST:     GGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAG                         CAACACTTGGACAGATTTTATCTAATCATGCATTGAAGCCCAGAGTATATA
genomic: GGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctcc ... gcttttgcagCAACACTTGGACAGATTTTATCTAATCATGCATTGAAGCCCAGAGTATATA
EST: gi|87006638|gb|CI295021.1|CI295021
EST:     GGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAG                         CAACACTTGGACAGATTTTATCTAATCATGCATTGAAGCCCAGAGTATATA
genomic: GGATGCAGACTTTTATGTGAAGGTTGATGATGACGTGCATGTAAACATAGgtaaatctcc ... gcttttgcagCAACACTTGGACAGATTTTATCTAATCATGCATTGAAGCCCAGAGTATATA