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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtcactttactgacttatcttgtgtcttgataaaaaaaaagatttgatgctcaaatgatatgtctagcaacaactaagcaaaccatgttttatcatgcagGTGCTTCCACCTCTTTGTGCGGAACTTAGGAATTTAGTTTTGCAACCAATAATCTTGCCAATGGTTCTAACTATAGCACAGTCTCAG

Basic information

species Arabidopsis thaliana
transcript AT1G71410.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 7
gtagtcact-ttactgacttatcttgtgtcttgataaaaaaaaagatttgatgctcaaatgatatgtctagcaacaactaagcaaaccatgttttatcatgcagGTGCTTCCACCTCTTTGTGCGGAACTTAGGAATTTAGTTTTGCAACCAATAATCTTGCCAATGGTTCTAACTATAGCACAGTCTCAG
 ||     | |||||   | |   ||  |  |  | ||     || | || |  |   |  ||     |      || |  |  ||  ||  ||   ||| ||||| |||||||| |||||||| || ||||||||| | ||  | || ||||| || || |||||||||||||| || ||| ||||||||
-taaatgttattacttcttgactctgaattctcctgaattttgagttatgtttttttcactattgtcgtgaatgtaatttggacaaatataatt---catacagGTCCTTCCACCACTTTGTGCAGAGCTTAGGAATGTGGTGATACAGCCAATGATTTTACCAATGGTTCTAACCATTGCAGAGTCTCAG

upper sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 7
--gtagtcactttactgacttatcttg-tgtcttgataaaaaaaaagatttgatgctcaaatgatatgtctagcaacaactaagcaaaccatgttttat----catgcagGTGCTTCCACCTCTTTGTGCGGAACTTAGGAATTTAGTTTTGCAACCAATAATCTTGCCAATGGTTCTAACTATAGCACAGTCTCAG
   |  | | |||| ||| | ||     || ||| |            | |     |   | |  |||  ||||  |||  |||  |      ||||||    |||| |||||||||||||||||||||| |||||| | ||||| ||  |||||||||| ||  | || |||||||| || |||||  ||||||||
gtctgtttagtttaatgaatcattcaaatgccttca----------attattgcttttggaaggcatgaatagcttcaatgaagagattttccttttatgtttcatgtagGTGCTTCCACCTCTTTGTGCAGAACTTCGAAATTTGGTGATGCAACCAATGATTCTTCCCATGGTTCTCACAATAGCGGAGTCTCAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgctcaaatgatatgtctagcaacaactaagcaaaccatgttttatcatgcagGTGCTTCCACCTCTTTGTGCGGAACTTAGGAATTTAGTTTTGCAACCAATAATCTTGCCAATGGTTCTAACTATAGCACAGTCTCAG
 atttgat  putative branch site (score: 5)
                                          ttttatc  putative PPT
       aaatgatat  TA-rich tract