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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acccatttctagcagtggttgttagatatgcgctgataaacatcctattaaacctcttgttcatgcttgatacttactcaaatctttctctattatgcagATCCATCAGGCTTTATCCTTTTTCCTCTAGTTGTTCATTCTTTTGACTTGATTATATCCTCAATTGGTATTCTATCAATCAAGGGAACACGTGATGCTAG

Basic information

species Arabidopsis thaliana
transcript AT1G78920.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G78920.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 3'ss of exon 8
--acccatttctagcagtggttgttagatatgcgctgataaacatcctattaaacctcttgttcatgcttgatacttactcaaatctttctctatta-tgcagATCCATCAGGCTTTATCCTTTTTCCTCTAGTTGTTCATTCTTTTGACTTGATTATATCCTCAATTGGTATTCTATCAATCAAGGGAACACGTGATGCTAG
   ||   || |        | |  |   ||    |  |   ||     ||     | ||| | ||  ||     |||     | | |||| |  || ||||||||| ||||||||||| || |||||||| ||||||||||| |||||  || | || || ||| |||| || || |||||   ||||||||||||  || |
gtgcctggttttgagtaaaatcgagattcatcttttcttctgcaataactt---ttttttggtaatatttctactttataatcagcattctttgctaatgcagATCCCTCAGGCTTTATACTGTTTCCTCTTGTTGTTCATTCATTTGATCTGGTGATCTCATCAGTTGGAATACTCTCAATTCGGGGAACACGTGACTCTGG
















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|164054762|gb|ES010997.1|ES010997
EST:     GAAGTGCAAAATTGAAG                         ATCCATCAGGCTTTATCC-TTTTCCTCTAGTTGTTCATTCTTTTGACTTGA
genomic: GAAGTGCAAAATTGAAGgtgcaccatc ... tattatgcagATCCATCAGGCTTTATCCTTTTTCCTCTAGTTGTTCATTCTTTTGACTTGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattaaacctcttgttcatgcttgatacttactcaaatctttctctattatgcagATCCATCAGGCTTTATCCTTTTTCCTCTAGTTGTTCATTCTTTTGACTTGATTATATCCTCAATTGGTATTCTATCAATCAAGGGAACACGTGATGCTAG
                         tacttac  putative branch site (score: 1)
                                     tctttctctattat  putative PPT
                                  aaatcttt  TA-rich tract