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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATAAACTCGGCAGTTGGAGCCTTACTTGTTACCTTCACCGTCTATATCATCCCTGCCTTAGCCCACATGCTCACGTACCGCACCGCCTCTGCCCGCCGGgtacctacattcttctctcgctcacattaccattcctaaactatactaaagattttatgaattcagtagatgacatacatttatttcatttagatagata...

Basic information

species Arabidopsis thaliana
transcript AT5G01240.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G01240.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 6
AATAAACTCGGCAGTTGGAGCCTTACTTGTTACCTTCACCGTCTATATCATCCCTGCCTTAGCCCACATGCTCACGTACCGCACCGCCTCTGCCCGCCGGgtacctacattc---ttctctcgc--tcacattacc-attcctaaactatactaa-agattttatgaat-tcagtagatgacatacatttatttcatttagatagata
 || ||||| || || || ||  | || || | |||||||||||| ||||||||  || |  ||||||| |||||||||||| ||||||| ||| |   ||||  |   | |   | |  | ||  |  | ||||  |    |||| |   | |  |||||      || ||| ||    |||| || |   ||  | || |      
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACATCATCCCCTCCCTCTCCCACATCCTCACGTACCGCTCCGCCTCCGCCAGATTGgtaagtgtgtgcagctacctttgccttttctttacttaccattaaattgcccgagtagattcctcatatatcaatatgaaacatgcactg--tttgtctaaa------

upper sequence: AT5G01240.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G067022_T01 (Zea mays), 5'ss of exon 3
AATAAACTCGGCAGTTGGAGCCTTACTTGTTACCTTCACCGTCTATATCATCCCTGCCTTAGCCCACATGCTCACGTACCGCACCGCCTCTGCCCGCCGGgtacctacattcttct--ctcgctcacattaccattcctaaactatactaaagattttatgaattcagtagatgacatacatttatttcatttagatagata
 || ||||| || || || ||  | || || | ||||||||||||  ||||||| ||| | ||||||||||||||||||||| |||| || ||| |   ||||      |   | |    ||    | || |      ||    || ||||   ||  ||   |||  | ||||  || ||                     
CATCAACTCCGCCGTCGGCGCGCTCCTCGTCAGCTTCACCGTCTACGTCATCCCGGCCCTCGCCCACATGCTCACGTACCGCTCCGCGTCCGCCAGATTGgtaagcgtgtcgatatgatccgtcgtctttgctggctgta---catgctaact-ttccatcgcttct-tggatgcaatgcaacag-----------------
















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|86067802|gb|DR363559.1|DR363559
EST:     TCCCTGCCTTAGCCCACATGCTCACGTACCGCACCGCCTCTGCCCGCCGG                         AACGCGGCGGNA-AAACCACCGTTTTTTATCCCTAGCTGGGCTGGCAGTT-
genomic: TCCCTGCCTTAGCCCACATGCTCACGTACCGCACCGCCTCTGCCCGCCGGgtacctacat ... ggcgtggcagAACGCGGCGG-AGAAACCACCGTTTTTTATCCCTAGCTGGGCTGG-AGTTT
EST: gi|125316605|gb|EL330690.1|EL330690
EST:     CCTCTGCCCGCCGG                         AACGCGGCGGAGAAACCACCGTTTTTTATCCCTAGCTGGGCTGGAGTTTAC
genomic: CCTCTGCCCGCCGGgtacctacat ... ggcgtggcagAACGCGGCGGAGAAACCACCGTTTTTTATCCCTAGCTGGGCTGGAGTTTAC