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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattctcatgatcgaatcattaattagggtgaaatttgaaaaactagggtttcttatgaatttgagcattttgggggtgaaattgcaaagttagggttttttttatttatgaatttgagcatttgggtattgaaagttatgttgtggattctctcagGTGATATTCATGGTCAATATCAAGATCTTTTGAGGTTGTTTGAATACGGAGGTTATCCTCCTTCAGCAAACTATCTATTCCTTGGTGATTACGTTGACAG

Basic information

species Arabidopsis thaliana
transcript AT5G27840.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G27840.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S39_109V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaaattctcatgatcgaatcattaattagggtgaaatttgaaaaactagggtttcttatgaatttgagcattttgggggtgaaattgcaaagttagggttttttttatttatgaatttgagcatttgggtattgaaagttatgttgtggattctctcagGTGATATTCATGGTCAATATCAAGATCTTTTGAGGTTGTTTGAATACGGAGGTTATCCTCCTTCAGCAAACTATCTATTCCTTGGTGATTACGTTGACAG
                                                   |  |   | |||| |   |  |||| |       | |     ||  | ||  |  | ||       | ||    |||| |  | |  |   |  |    || ||  |||||||||| |||||||||||    || |||||||||||||||||||| || || | ||| |||   ||||| ||  | ||| | || || || ||||||||
---------------------------------------------------ggctgcgacgaatctagtctctttgagaagctcctggtcgttttgtgtttcatgctgttc-----ctcgaagtattggctgataagcgccgttctt---atgctg-cagGTGATATCCATGGTCAATACTCTGACCTTTTGAGGTTGTTTGAATATGGTGGCTTTCCACCTGATGCAAATTACTTGTTCTTAGGAGACTATGTTGACAG
















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|124883068|gb|EH961970.1|EH961970
EST:     CCTCTCTCAACCTAATCTCCTTGATCTCCATGCCCCAATTCGCATCTGCG                         GTGATATTCATGGTCAAATATCAAGATCTTTTGAGGTTGTTTGAATAC
genomic: CCTCTCTCAACCTAATCTCCTTGATCTCCATGCCCCAATTCGCATCTGCGgtaaattctc ... attctctcagGTGATATTCATGGTCAA-TATCAAGATCTTTTGAGGTTGTTTGAATAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttatgaatttgagcatttgggtattgaaagttatgttgtggattctctcagGTGATATTCATGGTCAATATCAAGATCTTTTGAGGTTGTTTGAATACGGAGGTTATCCTCCTTCAGCAAACTATCTATTCCTTGGTGATTACGTTGACAG
                                              ttctctc  CT-rich tract
     tatgaattt  TA-rich tract