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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCGCAACGCCAAGTGGTGGTACTCCGCTTTCCACAACGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataattcattcatcatttctccttctccatttcatttcatcgtccatggatgagtgttcgattttgtttttttttgtag

Basic information

species Oryza sativa
transcript LOC_Os12g14100.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g14100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G175321_T01 (Zea mays), 5'ss of exon 1
CCCGCAACGCCAAGTGGTGGTACTCCGCTTTCCACAACGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataattcattcatcatttctccttctccatttcatttcatcgtccatggatg---agtgttcgattttgtttttttttgtag-------------------------------------------------------------------------------
|| | |||||||| |||||||||||||| |||||||||||||| ||||||||||||||||||||||||||||| |||| ||| ||||||||||||||||||||| |    ||| ||||   |||  |  |   | |  |     | || || |      | | ||     |||  |   | ||| |                                                                               
CCAGGAACGCCAAATGGTGGTACTCCGCCTTCCACAACGTCACGGCCATGGTCGGCGCCGGCGTCCTCAGCCTGCCCTACGCAATGTCCGAGCTCGGCTGgtacgtgg--catccatctgatctggtcttaattgttgtcctcgcctcgatcggcatgcaatattgtgccttgcatgcatctgtcgtcgcgatcgatccatttaactgatcgatggatatatggatctgcatgcgtgaacgaactaacacaccgcatgcgtgcag

upper sequence: LOC_Os12g14100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA08G10740.1 (Glycine max), 5'ss of exon 1
CCCGCAACGCCAAGTGGTGGTACTCCGCTTTCCACAACGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacata-attcattca-----tcatttctccttctccatttcatttcatcgtccatggatgagtgttcgattt-tgtttttttttgtag--------------------------
|||| || ||||| ||||||||||| || ||||||||| |||| |||||||| || || || ||||||| ||| || |  ||||||||   | | ||||||||| || || |  | |     | |  | |  || |   ||  |  |  ||   | | ||  | |    | ||| | | |  | |   |                           
CCCGAAATGCCAAATGGTGGTACTCTGCCTTCCACAACATCACTGCCATGGTTGGTGCTGGTGTCCTCACCCTTCCTTATGCCATGTCTATGATGGGCTGgtacctacatcctcttaaactttaaactatgattgtaacttgtacctagtcacactttgaaaaattgatgctttatatatgatatcaaattagcaacaattgtgatgcattaacag

upper sequence: LOC_Os12g14100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA05G27770.1 (Glycine max), 5'ss of exon 1
CCCGCAACGCCAAGTGGTGGTACTCCGCTTTCCACAACGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataattcattcatcatttc---------tcct--tctccatttcatttcatcgtccatggatgagtgttcgattttgttttt----ttttgtag---------------------------------------
     || ||||| ||||||||||| || ||||||||| ||||||||||||| || || || |||||||  || || |  ||||||||   | | || |||||| ||  || |     | ||          | ||    |  |  |  |  ||   || |||  || ||  |  |||      ||     ||| |||                                       
----AAATGCCAAATGGTGGTACTCAGCCTTCCACAACATCACCGCCATGGTTGGTGCTGGTGTCCTCACTCTTCCTTATGCCATGTCTATGATGGGTTGGTACgtacgtcctcttaaactttaaactatgatgctaacttgtacctagtcacactttcaatgactgcgtcatatattgaacgattgatgctttatagatgatatggaattaacatgaattgtgttgcattaacaag

upper sequence: LOC_Os12g14100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: AT1G24400.1 (Arabidopsis thaliana), 5'ss of exon 1
CCCGCAACGCCAAGTGGTGGTACTCCGCTTTCCACAACGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtaca-taattcattcatcat--ttctccttctccatttcatttcatcgtccatggatgagtgttcgattttgtttttttttgtag
|| | ||||| |||||||||||||| ||||| ||||| |||||||||||||| || || || || || ||| | |||| ||| |||||| | ||||| ||||| | |||||  || |   |  |  || |  ||   || || |  |  ||||||      | |  | ||||| | | ||      
CCAGAAACGCTAAGTGGTGGTACTCTGCTTTTCACAATGTCACCGCCATGGTTGGTGCTGGTGTTCTTAGCTTGCCCTACGCTATGTCCAATCTCGGATGgtatactaatttgttgaatctgataatcttaatctcctttatgttttaatccatgatctgatctgagtttttgatgtattacag--

upper sequence: LOC_Os12g14100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: AT1G67640.1 (Arabidopsis thaliana), 5'ss of exon 1
CCCGCAACGCCAAGTGGTGGTACTCCGCTTTCCACAACGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataattcattcatcatttctccttctccatttcatttcatcgtccatggatgagtgttcgattttgtttttttttgtag------------
|  | || ||||||||||||||||| || || ||||| ||||||||||||||||| || || || |||||| | || | |||||||||  | || || ||||| |||    ||  | | |   |   |    || |||||  |   ||  |  ||    |||| || ||  | ||      |             
CTAGAAATGCCAAGTGGTGGTACTCTGCGTTTCACAATGTCACCGCCATGGTCGGGGCTGGTGTACTCAGCTTACCTTACGCCATGTCTAATCTTGGATGgtatatatccaatctagc-tacatatataaatatctcattagaaaatctctatatacacgttcaatattaatattacactcaattttgatggcag

upper sequence: LOC_Os12g14100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S5_176V6.1 (Physcomitrella patens), 5'ss of exon 2
CCCGCAACGCCAAGTGGTGGTACTCCGCTTTCCACAACGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataattcattcatcatttct---ccttctcca----------tttcatttcatcgtccatgg--------atgagtgttcgattttgtttttttttgtag
  ||||| ||||| |||||||||||||| |||||||| || ||||| ||||| |||||||| || ||  |  | |||  |||||||  | |  |    ||||      | |   | |  | |||   || ||||            |||||| |    ||    ||        |  |||    || |   | ||    || ||
ATCGCAAAGCCAAATGGTGGTACTCCGCCTTCCACAATGTTACCGCAATGGTGGGCGCCGGAGTGCTGGGATTGCCCAACGCCATGGTCTACTTAACATGgtgagggctcctcacgttttgtctaatccgtctcagagtcacacagtttcatgttgcagtttgcggcagtgggcacaagtaacggaatggctattcacatgcag

upper sequence: LOC_Os12g14100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ10949 (Selaginella moellendorffii), 5'ss of exon 1
CCCGCAACGCCAAGTGGTGGTACTCCGCTTTCCACAACGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataattcattcatcatttctccttctccatttcat-ttcatcgtccatggatgagtgttcgattttgtttttttttgtag
|  | |||||||| |||||||||||||| || |||||||| ||||| ||||| ||  | ||||| ||     | ||||  || |||    | || || |||||     |||     | ||  |  || |    |||    ||| ||||   |  |                             
CGAGGAACGCCAAATGGTGGTACTCCGCGTTTCACAACGTAACCGCGATGGTAGGATCGGGCGTGCTGGCGTTACCCTCGGCTATGGTTTATCTGGGATGgtaac--gttcgaatgttataacgtctacattttttagggttcttcgtttttccag----------------------------

upper sequence: LOC_Os12g14100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ10950 (Selaginella moellendorffii), 5'ss of exon 2
CCCGCAACGCCAAGTGGTGGTACTCCGCTTTCCACAACGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataattca------ttcatcatttctccttctccatttcatttcatcgtccatggat--gagtgttcgat---tttgtttttttttgtag------
|| | |||||||||||||||||||| || ||||| || |||||||||||||| || || || || || ||||||||||  || |||  | | || ||||||||  |  |||       ||| || ||||     ||   ||  | |||        | |||   | |  | | |   |  || |||| |  |        
CCAGGAACGCCAAGTGGTGGTACTCGGCCTTCCATAATGTCACCGCCATGGTTGGAGCTGGAGTTCTTAGCCTCCCCTCGGCGATGGTCTATCTTGGCTGgtaagttcttcgcagctcttcttcgtttcaatcgctagcttcaaattcgcttagtttcgatccaaattcttggtcagtcagtgttttctcattcgtgctc

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|88719622|gb|CI743132.1|CI743132
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTG                         GGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataatt ... ttttttgtagGGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
EST: gi|88415644|gb|CI589236.1|CI589236
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTG                         GGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataatt ... ttttttgtagGGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
EST: gi|88406243|gb|CI596370.1|CI596370
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTG                         GGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataatt ... ttttttgtagGGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
EST: gi|88718590|gb|CI742100.1|CI742100
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTG                         GGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataatt ... ttttttgtagGGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
EST: gi|88731661|gb|CI755274.1|CI755274
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTG                         GGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataatt ... ttttttgtagGGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
EST: gi|88722840|gb|CI746350.1|CI746350
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTG                         GGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataatt ... ttttttgtagGGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
EST: gi|88300892|gb|CI592072.1|CI592072
EST:     GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTG                         GGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTCCTCAGCCTCCCCTTCGCCATGTCCGAGCTCGGCTGgtacataatt ... ttttttgtagGGGTCCGGGGGTGGCGGCGATGATCATGTCGTGGGTGATCACGCTGTACAC