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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatatgttcatgtactaattttggaattccatcttaaagaaacttgcaaacttattgttacttctctaaacaactttacttgagtcatgaag

Basic information

species Oryza sativa
transcript LOC_Os05g03820.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g03820.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G020096_T01 (Zea mays), 5'ss of exon 5
GGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatatgttcatgtactaattttggaattccatcttaaagaaacttgcaaactt--attgttacttctctaaac---------aactttacttgagtcatgaag----------------------------------------------------------------------
||||| ||| |||| ||||||||||||||||||||||||||  | ||||| ||||||||||||||||| ||||| ||||| |||||||  |||| |  || |  | || |  | ||| ||| || |  ||  |    |   |  |||    ||  ||| ||          |||| ||  |  | ||| |                                                                        
GGAAGATACAAAATAATGAGGAATTACATGCCTAAAGTTGGTACCCTTGGCCTTGATATGATGTTCCGGACATGTACTGTGCAGgtgagcatatttctattt--ttatgtgtggattgcattttcagaaatgtcatcactctccatttgagctcatctcaaagatacctgaaactctatctacgacataagttgattcaataaagaagttaactgatttatattatgatagtcttgactgaagttcacacttctatgtccag

upper sequence: LOC_Os05g03820.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G459896_T01 (Zea mays), 5'ss of exon 4
GGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatatgttcatgtactaattttggaattccatcttaaagaaacttgcaaactt-attgttacttctctaaacaacttt----acttgagtcatgaag---------------------------------------------------------------------------
||||| |||||||| ||||||||||||||||||||||||||  ||||||  ||||||||||||||||||||||| ||||| |||||||  |||| |  || |  ||    |||| | |||| || |  | |    ||  ||  |||    ||  ||| ||  |        |||  |   ||||                                                                             
GGAAGATACGAAATAATGAGGAATTACATGCCTAAAGTTGGTACTCTTGACCTTGATATGATGTTCCGAACATGTACTGTACAGgtgagcatatttctat-ttttatacgtggagtgccatttttagaataacatcactctccatttgagctcatctcaaagatacctggaactctatcaatgacatatgttgattcactaaagaagttaactgatttatattgtgataatcttgactgcagttcacacttctatgtccag

upper sequence: LOC_Os05g03820.2 (Oryza sativa), 5'ss of exon 6
lower sequence: AC183590.4_FGT001 (Zea mays), 5'ss of exon 3
GGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatatgttcatgtactaattttggaattccatcttaaagaaacttgcaaacttattgtta---cttctctaaacaacttt--acttgagtcatgaag---------------------------------------------------------------------------
||||| |||||||| |||||||||||||||||||||||| |  ||||||| ||||||||||||||||||||||| ||||| |||||||  |||| |  || |  ||    |||| | |||| || |  | |    ||  ||   | | |   | |||| ||   || |   |||  |  |||||                                                                             
GGAAGATACGAAATAATGAGGAATTACATGCCTAAAGTTTGTACTCTTGGCCTTGATATGATGTTCCGAACATGTACTGTGCAGgtgagcatatttctat-ttttatacgtggagtgccatttttagaataacatcactctccgtttgagctcatctcaaagatacctggaactctatccatgacatatgttgattcactaaagaagttaactgatttatattgtgataatcttgactgcagttcacacttctatgtccag

upper sequence: LOC_Os05g03820.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G111579_T01 (Zea mays), 5'ss of exon 5
GGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatatgttcatgtactaattttggaattccatcttaaaga-aacttgcaaacttattgttacttctctaaacaacttt----acttgagtcatgaag---------------------------------------------------------------------------
||||| |||||||| ||||||||||||||||||||||||||  ||||||| ||||||||||||||||| ||||| ||||| |||||||    || |  || |  || || || | | |||| || |  | ||| | |      |||    ||  ||| ||  |        |||  |   ||||                                                                             
GGAAGATACGAAATAATGAGGAATTACATGCCTAAAGTTGGTACTCTTGGCCTTGATATGATGTTCCGGACATGTACTGTGCAGgtgagcgaatttctat-ttttatttgtgaagtgccattttcagaataacatccctctccatttgagctcatctcaaagatacctgaaactctatcgatgaccaaagttgattcactaaagaagttaactgatttatattgtgataatcttgactgaagttcacacttctttgtacag

upper sequence: LOC_Os05g03820.2 (Oryza sativa), 5'ss of exon 6
lower sequence: AC203352.3_FGT001 (Zea mays), 5'ss of exon 2
GGAAGGTACGAAATTATGAGGA------ATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatatgttcatgtactaattttggaattccatcttaaagaaacttgcaaacttattgttacttc-tctaaacaacttt----acttgagtcatgaag------------------------------------------------------------------------
||||| |||||||| ||||| |       ||||||||||||||||||  | ||||| |||||||||||||||   ||||| ||||| |||||||  |||| |  || |  ||    |||| | |||| || |  | |    ||  ||   | | || || ||| ||  |        |||  |   ||||                                                                          
GGAAGATACGAAATAATGAGCATGTACAGTTACATGCCTAAAGTTGGTACACTTGGCCTTGATATGATGTTCTACACATGTACTGTGCAGgtgagcatatttctat-ttttatgcgtggagtgccatttttagaataacatcactctccatttgacctcatctcaaagatgcctggaactctatcaatgacatatgttgattcactaaagttaactgatttatattgtgataatcttgacttcagttcacacttctatgtccag

upper sequence: LOC_Os05g03820.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA05G37850.3 (Glycine max), 5'ss of exon 6
GGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgat-tatatg----ttcatgtactaattttgga-------attccatcttaaagaaacttgcaaa--cttattgtt-----acttctctaaacaactttact--tgagtcatgaag----------------------
||||| ||||| || |||||||| |||||||||||||||||||||||||||||||| ||||||||| | ||||||||||| |||||||  |   ||    ||   |  || |||||  |       |||| |  || || |   |   ||     |||||||     | |  | ||| || || |  |  ||  |  | |                        
GGAAGATACGACATCATGAGGAACTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTGCAGgtgagatgggtgatgatttgcgagctgatttttaacaaagccattctaatttgaacatggtgaaaagagtatattgttgacacaatattataatcagctctcatactggatagtaatatattttatcttaacttttatag

upper sequence: LOC_Os05g03820.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA08G01750.1 (Glycine max), 5'ss of exon 6
GGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatatgttcatgtactaattttggaattccatcttaaagaaacttgcaaacttattgttacttctcta------aacaactttacttgagtcatgaag------------------------------------------------
||||| ||||| |||||||||||||||||||||||||||||||||||||||||||| ||||||||| | ||||||||||| |||||||  || |||   |||  | |||   || || ||   |||      |  ||||  |||||| | ||    |      ||  | | |  ||  | ||  |                                                  
GGAAGATACGACATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGACATGATGTTCAGGACATGCACTGTACAGgtgag-atgtgtgagtgtgatgattcatgatttgcaagctaattt--ttaacaaagctattgtaatttgaacatggtgaaaagagtatctttttgacacaatatataatcagctctcatactggatagtatatatttatcttactttatag

upper sequence: LOC_Os05g03820.2 (Oryza sativa), 5'ss of exon 6
lower sequence: AT4G23100.3 (Arabidopsis thaliana), 5'ss of exon 6
GGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgt--gatta-tatgttca-tgtactaattttggaattccatcttaaagaaacttgc--------------aaacttattgtta--cttctctaaacaactttacttg-agtcatgaag-
|| || ||||| |||||||| || |||||||| ||||||||  | ||||| |||||||||||| ||||||| || |||||||||||  ||||| |||  | | | | |   ||||   | |     | ||  |||||| |              || |||||| | |  ||| |  ||||  | ||||||| | || |||   
GGGAGATACGACATTATGAGAAACTACATGCCGAAAGTTGGTACCCTTGGTCTTGATATGATGCTCCGAACGTGTACTGTTCAGgttagattaatattctgactttgcgccttttcataatttccttaaactaaactttccagttctcatcaataatcttattttgaaacttatagaaactgcattacttgcaatcttgacag

upper sequence: LOC_Os05g03820.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv02s0025g03530.t01 (Vitis vinifera), 5'ss of exon 6
GGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtga------ttatatgttcatgtactaattttgg--aattccatcttaaagaaacttgcaaacttattgttacttctctaaacaactttacttgagtcatgaag-----------------------------------------------------------------------------------------
||||| ||||| |||||||||||||||||||| ||||||||||| ||||| ||||||||||||||  ||||||| ||||||||||| |      |  |   ||  ||    ||   ||   |  ||  || ||   || | |  ||   |  | ||  || |  |      | |  |  | || |                                                                                             
GGAAGATACGAGATTATGAGGAATTACATGCCCAAAGTTGGCTCACTTGGACTTGATATGATGTTTAGAACATGTACTGTTCAGgtaagacaaatgctgcatttttggttaaacagtgatcaggtcattcatatcaaacccttgaaggctgattttgttttttcatgattttatcttctattccttggttttgtgaattaccctgcttttaaattgaagtcaataatttatcttctgaatggaaagtgatgatatttctggtttttccttgttgatag

upper sequence: LOC_Os05g03820.2 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S28_268V6.1 (Physcomitrella patens), 5'ss of exon 5
GGAAGGTACGAAATTATGAGGAATTACATGCCTAAAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatatgtt---------catgtactaattttg---------gaattccatcttaaagaaacttgcaa----acttattgttacttctctaaacaa--ctttacttgagtcatgaag------------------------------------------
|| ||||| || || ||||||||||||||||| |||||||| ||  | || || || ||||||||||| |||||||| |||||||||   ||||            |||  ||  ||  ||         |  ||  || || |  || ||  | |    | ||   |    | ||| | | |   |||| | |     |||  |                                          
GGCAGGTATGAGATAATGAGGAATTACATGCCGAAAGTTGGATCGTTCGGCCTGGACATGATGTTCCGCACATGCACGGTTCAGgtgcgcatataacacctctcgccatagacagatcctgatcacttcagctttttattttgatcaacctgaccacgggatttgccgaatatgctcgatatatttctttgcctccccgatgtggatggtttctcactccgtaactgctgcttaaaatcatgtgcag

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|7219950|gb|AU063307.2|AU063307
EST:     AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAG                         GTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAA
genomic: AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatat ... agtcatgaagGTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAA
EST: gi|33796283|gb|CF324008.1|CF324008
EST:     AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAG                         GTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGTACT
genomic: AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatat ... agtcatgaagGTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGTACT
EST: gi|55411431|gb|CV723807.1|CV723807
EST:     GTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAG                         GTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGTACT
genomic: GTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatat ... agtcatgaagGTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGTACT
EST: gi|58658531|gb|CK047211.1|CK047211
EST:     AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAG                         GTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGCACT
genomic: AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatat ... agtcatgaagGTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGTACT
EST: gi|218498945|gb|FG948066.1|FG948066
EST:     AAGTT-G-TCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAG                         GTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCATACT
genomic: AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatat ... agtcatgaagGTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGTACT
EST: gi|218500233|gb|FG945122.1|FG945122
EST:     TGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTACAG                         GTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCATACT
genomic: TGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatat ... agtcatgaagGTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGTACT
EST: gi|29679436|gb|CB675711.1|CB675711
EST:     AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAG                         GTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGCACT
genomic: AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatat ... agtcatgaagGTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGTACT
EST: gi|29677970|gb|CB674245.1|CB674245
EST:     AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAG                         GTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGACATTCCGTACT
genomic: AAGTTGGCTCTCTTGGGCTTGATATGATGTTCCGAACATGCACTGTTCAGgtgattatat ... agtcatgaagGTTAATCTTGACTTCAGTTCAGAGCAAGATATGATAAGGAAATTCCGTACT