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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACAAATACGTTGGCCTAAAAGGAAAGGCTGGGGACTGGGGGGATGGTTTCAAGAGTGCATATTTTCAGTTGGCCCTTCGTAGTCTCAGGTCACTCGGAGgtatgaacctggcatatctaagtcttgttcatgtaacccgttgtctatataatactaaatctctaagttccattatgcagaacctgccatatctaattggttcattattgaatggtccatgtatctaaagctaatctcatgtactgtcatttcttcaaattgcag

Basic information

species Arabidopsis thaliana
transcript AT1G30450.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G30450.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os08g23440.1 (Oryza sativa), 5'ss of exon 13
TACAAATACGTTGGCCTAAAAGGAAAGGCTGGGGACTGGGGGGATGGTTTCAAGAGTGCATATTTTCAGTTGGCCCTTCGTAGTCTCAGGTCACTCGGAGgtatgaacctggcatatctaagtcttgttcatgtaacccgttgtctatataatactaaatctctaagttccattatgcagaacctgccatatctaattggttcattattgaatggtccatgtatctaaagctaatctcatgtactgtcatttcttcaaattgcag
||  | || ||  || ||||||| |||||||| |||||||| ||||| || ||||||||||| ||||| ||||| || || |||||||| ||| | |||||||| |  ||  | | |   |  ||   |    ||         |||| ||| | | |   | |  ||  || |   ||   | || || |                                                                          
TATTACTATGTGAGCTTAAAAGGTAAGGCTGGAGACTGGGGAGATGGATTTAAGAGTGCATACTTTCAATTGGCACTACGAAGTCTCAGATCATTAGGAGgtataactct--cttcttggaaactaaatatcatatttga--aactat-taagagttaccttgtttgtaacactgaacatt-cttgtcacag-------------------------------------------------------------------------

upper sequence: AT1G30450.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os01g19850.1 (Oryza sativa), 5'ss of exon 11
TACAAATACGTTGGCCTAAAAGGAAAGGCTGGGGACTGGGGGGATGGTTTCAAGAGTGCATATTTTCAGTTGGCCCTTCGTAGTCTCAGGTCACTCGGAGgtatgaacctg-gcat----atctaagtcttgttcatgtaacccgttgtctatataatactaaatctctaagttccattatgcagaacctgccatatctaattggttcattattgaatggtccatgtatctaaagctaatctcatgtactgtcatttcttcaaattgcag
||| | || ||  || ||||||||||||| |||||||||||||| || || ||||||||||| |||||  |||| ||  | |||||  | ||| | |||||||  |   |  ||||    ||  ||      ||   | ||        | || | | | ||  ||||| | |    |  |||||                                                                                     
TACTACTATGTCAGCTTAAAAGGAAAGGCAGGGGACTGGGGGGACGGATTTAAGAGTGCATACTTTCAACTGGCTCTAAGAAGTCTTCGATCAATGGGAGgtacaattttttgcatggaaattaaacaagccttgcagaaatttaagcacaatgtgaca-tatttctctgattgttttcttgcag-------------------------------------------------------------------------------------

upper sequence: AT1G30450.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G449569_T01 (Zea mays), 5'ss of exon 1
TACAAATACGTTGGCCTAAAAGGAAAGGCTGGGGACTGGGGGGATGGTTTCAAGAGTGCATATTTTCAGTTGGCCCTTCGTAGTCTCAGGTCACTCGGAGgtatgaacctggcatatctaagtcttgttcatgtaacccgttgtctatataatactaaatctctaagttccattatgcagaacctgccatatctaattggttcattattgaatggtccatgtatctaaagctaatctcatgtactgtcatttcttcaaattgcag
||  | || ||  || ||||||| |||||||| |||||||| ||||| |||||||||||||| ||||| |||||||| || |||||||| ||||| ||||||| ||  ||| | |||||   |   |   |  ||| |         || |||  |  | |  |  || |  || |||||                                                                                     
TATTACTATGTGAGCATAAAAGGGAAGGCTGGAGACTGGGGAGATGGGTTCAAGAGTGCATACTTTCAATTGGCCCTCCGAAGTCTCAGATCACTTGGAGgtacga--ctgac-tatctgctttgcgaatacataatc--------gtacaattttgtaacctttggtcct-ttctgcag-------------------------------------------------------------------------------------

upper sequence: AT1G30450.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G113276_T01 (Zea mays), 5'ss of exon 7
TACAAATACGTTGGCCTAAAAGGAAAGGCTGGGGACTGGGGGGATGGTTTCAAGAGTGCATATTTTCAGTTGGCCCTTCGTAGTCTCAGGTCACTCGGAGgtatgaacctggcatatctaagtcttgttcatgtaacccgttgtctatataatactaaatctctaagttccattatgcagaacctgccatatctaattggttcattattgaatggtccatgtatctaaagctaatctcatgtactgtcatttcttcaaattgcag
||  | || ||  || ||||||| |||||||| |||||||| ||||| ||||| |||||||| ||||| ||||| || || |||||||| ||||||||||||  |   ||| | |||||   |     | |  ||| |   |   || | |||  |  | || |    ||| || |||||                                                                                     
TATTACTATGTGAGCATAAAAGGGAAGGCTGGAGACTGGGGAGATGGGTTCAAAAGTGCATACTTTCAATTGGCACTCCGAAGTCTCAGATCACTCGGAGgtgcgg--ctgac-tatctgctttgcaattacttaatca--tactta-acaattttgtaactttgg--tcctttctgcag-------------------------------------------------------------------------------------

upper sequence: AT1G30450.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G401874_T01 (Zea mays), 5'ss of exon 7
TACAAATACGTTGGCCTAAAAGGAAAGGCTGGGGACTGGGGGGATGGTTTCAAGAGTGCATATTTTCAGTTGGCCCTTCGTAGTCTCAGGTCACTCGGAGgtatgaacctggcatatctaagtcttgttcatgtaacccgttgtctatataatactaaatctctaagttccattatgcagaacctgccatatctaattggttcattattgaatggtccatgtatctaaagctaatctcatgtactgtcatttcttcaaattgcag
||| | |||||  || ||||||||||||||||||||||||| ||||| ||||| || ||||| |||||| |||| || || || ||||| || || ||||||| |    | | ||||  |  |       || | |    ||   |||||   |   ||  |  ||  |  |||    ||| |  ||   ||    ||||| ||                                                             
TACTACTACGTGAGCTTAAAAGGAAAGGCTGGGGACTGGGGAGATGGATTCAAAAGCGCATACTTTCAGCTGGCTCTGCGAAGCCTCAGATCGCTGGGAGgtacg----tagaatatacatat-------atattatttcttcattatattgcatggaaatt--aaactttatt---tagagctagcttcattatcttggtgcag------------------------------------------------------------

upper sequence: AT1G30450.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA15G22520.1 (Glycine max), 5'ss of exon 11
TACAAATACGTTGGCCTAAAAGGAAAGGCTGGGGACTGGGGGGATGGTTTCAAGAGTGCATATTTTCAGTTGGCCCTTCGTAGTCTCAGGTCACTCGGAGgtatgaacctggcatatctaagtcttgttcatgtaacccgttgtctatataatactaaatctctaagttccattatgcagaacctgccatatctaattggttcattattgaatggtccatgtatctaaagctaatctcatgtactgtcatttcttcaaattgcag
|| || |||||  || | ||||||||||||||||||||||| ||||||||||| ||||||||||| ||  | || |||||||| ||  |||| || ||||||| | | |   || || |||   |  |  |     | |   ||  | | ||||| ||||    ||||   |||    |     |  |  |||||     |  || ||||||||||                                                 
TATAAGTACGTGAGCATTAAAGGAAAGGCTGGGGACTGGGGAGATGGTTTCAAAAGTGCATATTTCCAACTAGCACTTCGTAGCCTTCGGTCCCTAGGAGgtaagtatcattcaaatttaa---tcatctactctcctcaa-gtagagacaatacaaaata---aagtaatattgctaa----ttttcgcatcta-----tatatgattgaatggt-------------------------------------------------

upper sequence: AT1G30450.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv10s0003g04530.t01 (Vitis vinifera), 5'ss of exon 12
TACAAATACGTTGGCCTAAAAGGAAAGGCTGGGGACTGGGGGGATGGTTTCAAGAGTGCATATTTTCAGTTGGCCCTTCGTAGTCTCAGGTCACTCGGAGgtatgaacctggcatatctaag--tcttgttcatgtaac-ccgttgtctatataatactaaatctctaagttccattatgcagaacctgccatatctaattggttcattattgaatggtccatgtatctaaagctaatctcatgtactgtcatttcttcaaattgcag
||  | || ||  || | ||||| ||||||||||||||||| ||||| ||||||||||||||||| ||  | ||||||||||||||  | ||||| || |||  | |  |    |    ||   | |   |  ||||   || |||    | || | |   | || | || |  ||| | ||||  |     |    | ||                                                                   
TATTATTATGTATGCATCAAAGGGAAGGCTGGGGACTGGGGTGATGGCTTCAAGAGTGCATATTTCCAACTAGCCCTTCGTAGTCTTCGATCACTGGGGGgtgggtatattattttgtgaaaaatttcaatactgtagttccattgctgttctatttcagtagctattagctatatt-ttcagattcgatagtgaaaattt-------------------------------------------------------------------

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|47829383|gb|CK119067.1|CK119067
EST:     CAAGAGTGCATATTTTCAGTTGGCCCTTCGTAGTCTCAGGTCACTCGGAG                         CGAATCAAGTGCACCCAAAGAACTGGTACCCAATTCCCCTTGTCTTCTGCA
genomic: CAAGAGTGCATATTTTCAGTTGGCCCTTCGTAGTCTCAGGTCACTCGGAGgtatgaacct ... caaattgcagCGAATCAAGTGCACCCAAAGAACTGGTACCCAATTCCCCTTGTCTTCTGCA