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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGCCATCTATCTGTGGGCATTCATGTTTATCCTGTCTCTAGTGATGATGACTATATACCCGGTCTTGATAGCACCGCTCTTCAACAAGTTCACTCCTgtgtgtatttctgtcatggccattttacaattcactgcttgtttgcatatgttgttaccagacaatataatctcccgcttttttatggctatag

Basic information

species Arabidopsis thaliana
transcript AT4G01320.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G01320.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os02g45650.1 (Oryza sativa), 5'ss of exon 7
TCTTGCCATCTATCTGTGGGCATTCATGTTTATCCTGTCTCTAGTGATGATGACTATATACCCGGTCTTGATAGCACCGCTCTTCAACAAGTTCACTCCTgtgtgtat----ttctgtcatggccattttacaattcactgc---ttgtttgcatatgttgttaccagacaatataatctcccgc-ttttttatggctatag
 || || || ||||| ||||  || ||||||    | ||||| ||||||||||| ||||||||  || |||||||||| || |||||||| |||||||| ||  ||||    ||||||  | |    |    | |   |||    | |||  | | | |  ||        | | |    |  || |   || ||  | |  
CCTGGCAATATATCTATGGGGTTTTATGTTTGCATTATCTCTTGTGATGATGACAATATACCCCATCGTGATAGCACCTCTGTTCAACAAATTCACTCCGgttagtatctttttctgttgtagagcatacctagtatgctgtaattagttcacttgtctgttttttgtgtgagaaaggtacatgcatccattgtgcatct--

upper sequence: AT4G01320.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM5G813909_T01 (Zea mays), 5'ss of exon 7
TCTTGCCATCTATCTGTGGGCATTCATGTTTATCCTGTCTCTAGTGATGATGACTATATACCCGGTCTTGATAGCACCGCTCTTCAACAAGTTCACTCCTgtgtgtatttctgtcatggccattttacaattcactgcttgtttgcatatgttgttaccagacaatataatctcccgcttttttatggctatag--------
 || || || ||||| ||||  || |||||| |  |  ||||| |||||||||| ||||||||  |  ||||||| || || ||||||||||||||||||||| |||| | |||  | |  | |    |   | |    |  | |   || | |  |  |  ||  |        |    |   | ||||| |         
CCTGGCTATATATCTCTGGGGTTTTATGTTTGTATTAGCTCTACTGATGATGACAATATACCCCATTGTGATAGCTCCTCTGTTCAACAAGTTCACTCCTgtgagtatct-tgttctagtgagtagtgatagctccaactagtggtggatctagaaatgatgcaggagggggctacatagtagga-ggctagaaatcctaca

upper sequence: AT4G01320.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv15s0046g02040.t01 (Vitis vinifera), 5'ss of exon 7
TCTTGCCATCTATCTGTGGGCATTCATGTTTATCCTGTCTCTAGTGATGATGACTATATACCCGGTCTTGATAGCACCGCTCTTCAACAAGTTCACTCCTgtgtgtatttctgtcatggccattttacaattcactgcttgtttgcatatgttgtt--accagacaatataatctcccgcttttttatggctatag----
| | ||||||||||| |||| ||| |||||||| |||||| | |||||||||||  | || ||  |  | ||||| || || |||||||||||||| || ||| ||||||   |  |   |||| |  ||   |    |   ||   | | |||||       ||| | |  | | ||   | | |   || | |     
TTTGGCCATCTATCTTTGGGGATTTATGTTTATTCTGTCTATTGTGATGATGACACTGTATCCTATTCTAATAGCCCCACTTTTCAACAAGTTCACCCCAgtgagtattttcattctt-tcattctgtaaagaagaaatgcattcagtttcttgtttagtgtaacagttttcttttccatgtctctgctgcaacaagtag

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|164229780|gb|EL976434.1|EL976434
EST:     ACCGCTCTTCAACAAGTTCACTCCT                         CTTCCAGATGGAGACCTCCGGGAGAAGATTGAGAAACTTGCTTCTTCTCTA
genomic: ACCGCTCTTCAACAAGTTCACTCCTgtgtgtattt ... atggctatagCTTCCAGATGGAGACCTCCGGGAGAAGATTGAGAAACTTGCTTCTTCTCTA
EST: gi|164013437|gb|ES075484.1|ES075484
EST:     CAAGTTCACTCCT                         CTTCCAGATGGAGACCTCCGGGAGAAGATTGAGAAACTTGCTTCTTCTCTA
genomic: CAAGTTCACTCCTgtgtgtattt ... atggctatagCTTCCAGATGGAGACCTCCGGGAGAAGATTGAGAAACTTGCTTCTTCTCTA