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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatgatcattgcattgaatattaatctattaagctgtatccctaatgcattttttctccatgagttcatctgtatctatttcttttcatgttgaa...

Basic information

species Oryza sativa
transcript LOC_Os06g36770.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G165418_T04 (Zea mays), 5'ss of exon 6
GTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatgatcattgcattgaatattaatctattaagctgtatccctaatgcattttttctccatgagttcatctgtatctatttc----ttttcatgttgaa
||| | |||| ||| |  |||| ||||||||||||||||||||||| ||| |||||||| ||||||||||| || ||||| ||||  ||||||| ||||   |   | |||||||| ||    | | |||  | |||| |  ||||  ||  ||||||| |||||| || |||| |||     |||   ||||   
GTTACCAGTCTAGAAGCAAACCCTGTTGCTAGATGTCGACGTGTATTTGCTCATGCTCACGATTACCATATAAATTCTATTTCAAATAATAGgtcagta-atttgatacattgaattttctcatttcaagg-ggatccattttgcaactt--ctccatgggttcatatgcatctctttgagagtttgagtgttcct

upper sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA07G01440.1 (Glycine max), 5'ss of exon 6
GTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatgatcattgcattgaatattaatctattaagctgt--atccctaatgcattttttctccatgagttcatctgtatctatttcttttcatgttgaa---
||  | || || ||    |   | || ||| |||||||  | |||||||| |||||||||||||| |||||||| ||||| ||||  || |||| | |   |      | ||||   ||  | | ||| |||||  |      |  | |  ||| |   |   || || ||| |  |  |  | |    |||||   
GTAACCAGCCATGAGACCAGTTTGGTGGCTCGATGTCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaa-----accttgagggttcctattttaggctgttcagtgtggaatcttgctttttggttatctttatttgttttaacgtagtgttgatttgaaagt

upper sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 6
GTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatgatcattgca---ttgaatattaatctattaagctgtatccctaatgcatt--ttttctccatgagttcatctgtatctatttcttttcatgttgaa
||  | || || ||    |   |  | ||| |||| ||  | |||||||| |||||||||||||| |||||||| ||||| ||||  || |||| | |   | | | |     |   ||| || ||| || ||    |   ||      ||  || |||  ||   ||    ||||  | ||  |||  | ||    
GTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAGgtgatttgaaacctcgagggttcctataatagtctgttcagtgtcaaatcttgctttttggttatctttatttcttttattgtag-tgttgatttgaaagt----

upper sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 8
GTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatgatcattgcattgaatattaatctattaagctgtatcc-----ctaatgcattttttctccatgagttcatctgtatctatttcttttcatgttgaa
||  | || || ||   || || ||| |||||||||||| | |||||||| |||||||||||||| |||||||| || || ||||  || ||||| || |  |||   ||||| |  | ||  |  |    | |  |      ||  |  |||| | | | |  | ||||    | || | |     || |  ||| 
GTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAGgtaggt-tattcacc-cattggaattcaacttgcttccttcttactagcaactgctttatttgtccgcaaaaaattcaatgatgtc-actataagtcgt-ctga-

upper sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 6
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 6
GTTGCAAGTCAAGATGTGAACCTTGTTGCTAGATGTCGACGTGTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatgatcattgcattgaatattaatctattaagctgtatccctaatgcattttttctccatgagttc-atctgtatctatt-tcttttcatgttgaa
||| | || || ||    |||||||| |||||||| ||| | || ||||| ||||||||||||||||||||||| || || || |  |  ||||||   |  ||  |   ||     | |   ||| | | | ||  | | ||   | |||    | |   | |  ||| | ||  |  | ||| ||| |    
GTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAGgtaatcgttttc-ctaagttttccctcaggttat-atgttttactcttgatatctctttaacacgtttttgctgtctttctccttaatttttccatctcagg

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|58687462|gb|CK076149.1|CK076149
EST:     GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAG                         TGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
genomic: GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatga ... taattgtcagTGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
EST: gi|218499339|gb|FG949286.1|FG949286
EST:     ATTAACTCTATATCAACCAATAG                         TGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
genomic: ATTAACTCTATATCAACCAATAGgtaagtatga ... taattgtcagTGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
EST: gi|2310581|gb|C26736.1|C26736
EST:     GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAG                         TGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
genomic: GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatga ... taattgtcagTGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
EST: gi|58588909|gb|CF987217.1|CF987217
EST:     GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAG                         TGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAT
genomic: GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatga ... taattgtcagTGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
EST: gi|66912957|gb|CX099805.1|CX099805
EST:     GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAG                         TGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
genomic: GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatga ... taattgtcagTGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
EST: gi|33796287|gb|CF324010.1|CF324010
EST:     GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAG                         TGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
genomic: GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatga ... taattgtcagTGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
EST: gi|58660482|gb|CK049162.1|CK049162
EST:     GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAG                         TGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
genomic: GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatga ... taattgtcagTGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
EST: gi|58688813|gb|CK077500.1|CK077500
EST:     GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAG                         TGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA
genomic: GTATATGCACATGCTCATGATTACCATATTAACTCTATATCAACCAATAGgtaagtatga ... taattgtcagTGATGGCGAGACATACATATCAGCAGATGATCTGCGTATAAATCTATGGAA