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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcgtctttttaacgttttataaataatcttaaggtcaatcatcctgcaaaacaaaagttacttcataattaatgaggtaaacatgttgtcctatgtcttgtctccaatgcagATTGTGCCCTTTTCAAATGCATTTTACAGAGGATTGACTGACCTTATATCTCCTGCTTGGTTGAAACTATTTAATGCCCATGAATTTAATCAG

Basic information

species Arabidopsis thaliana
transcript AT3G53090.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G53090.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA19G37310.1 (Glycine max), 3'ss of exon 11
gtatcgtctttttaacgttttataaataatcttaaggtcaatcatcctgcaaaacaaaagttacttcataattaatgaggtaaacatgttgtcctatgtcttgtctccaatgcagATTGTGCCCTTTTCAAATGCATTTTACAGAGGATTGACTGACCTTATATCTCCTGCTTGGTTGAAACTATTTAATGCCCATGAATTTAATCAG
         ||||| | |  | ||    |   ||| |    | || |      ||    || | | | |  |  || | ||  | || |    | ||||         | |||||||  |||||||||||||||||||||| ||||| || ||||| ||||||||||| || ||||||||  |||| |||||   |||||||||||||
--------gttttaccatcatttactgtagtataatgcaggttattc------acttctgt-attccctgttgtatcatgtgtatatatgtgacaatgttgaa-----attgcagATATTGCCCTTTTCAAATGCATTTTATAGAGGGTTAACTGATCTTATATCTCCAGCCTGGTTGAAGTTATTCAATGCTAGTGAATTTAATCAG

upper sequence: AT3G53090.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv08s0007g04290.t01 (Vitis vinifera), 3'ss of exon 9
--gtatcgtct--ttttaacgttttataaa------taatcttaa--ggtcaatcatcctg-caaaacaaaagttacttcata-attaatgaggtaaacatgttgtcctatgtct-tgtctccaatgcagATTGTGCCCTTTTCAAATGCATTTTACAGAGGATTGACTGACCTTATATCTCCTGCTTGGTTGAAACTATTTAATGCCCATGAATTTAATCAG
  |||  |     |||  |  || | || |      || |  |||  | |  | | |  |  ||| |   || | | || ||    |     | ||||  |    |||  ||||  ||| |  | |||||||  ||||  | ||||||||||| |||||||| |||||||| ||||| || ||| ||||||||||  | ||||||||   |||||| ||||||
gtgtagtgcacaatttggaaattctgtagacctatctatttataacagatttaccttgttatcaatattgaattgaatttatctgcttccatgctaaattttccttccactgtcaatgtttgaattgcagATGCTGCCTCTATCAAATGCATTCTACAGAGGGTTGACTGATCTTATTTCACCTTCTTGGTTGAAGTTGTTTAATGCAAGTGAATTCAATCAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacttcataattaatgaggtaaacatgttgtcctatgtcttgtctccaatgcagATTGTGCCCTTTTCAAATGCATTTTACAGAGGATTGACTGACCTTATATCTCCTGCTTGGTTGAAACTATTTAATGCCCATGAATTTAATCAG
         aattaat  putative branch site (score: 3)
                                      tcttgtctcc  putative PPT
     tcataattaat  TA-rich tract