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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaagagagaactttcattctcatgcatagtatgttgttgtttcccatttagtgatattttactgcaagggatattctcattcatttttttgcaaacaacagcctattcaaatgtttttcttcgtgtatcctttttgttgacgcttgggttatgttttccttatttaccagGATCGAGTTCCAGCAGATGGTGTGGTCAAGTCAGGTAGAAGCACCATTGATGAGTCAAGTTTCACAGGTGAACCATTGCCAGTGACAAAAGAGTCAGGG

Basic information

species Arabidopsis thaliana
transcript AT4G33520.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G33520.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv12s0142g00400.t01 (Vitis vinifera), 3'ss of exon 3
gtaagaagagagaactttcattctcatgcatagtatgttgttgtttcccatttagtgatattttactgcaagggatattctcattcatttttttgcaaacaacagcctattcaaatgtttttcttcgtgtatcctttttgttga--cgcttgggttatgttttccttatttaccagGATCGAGTTCCAGCAGATGGTGTGGTCAAGTCAGGTAGAAGCACCATTGATGAGTCAAGTTTCACAGGTGAACCATTGCCAGTGACAAAAGAGTCAGGG
                                                                           |  ||   ||||   |  |  |      |   | |    ||| || | ||| |||  ||||    ||||  |  || |   ||||||||  | ||   ||||| || ||||||||||||||  | |||| | | |||||||||||  |||||||||||||||||||||| || || ||||| |||||||||    | |||
------------------------------------------------------------------------actttatccagttcaggatactatat-ttctaatttgtcttcatgattcttttcctgtgaccttcaatttgaatccttttgaacatgttttctctgtt---cagGACCGTGTTCCAGCAGATGGAATTGTCAGGGCTGGTAGAAGCACAGTTGATGAGTCAAGTTTCACAGGGGAGCCTTTGCCTGTGACAAAACTACCTGGG

upper sequence: AT4G33520.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: PP1S19_275V6.1 (Physcomitrella patens), 3'ss of exon 7
gtaagaagagagaactttcattctcatgcatagtatgttgttgtttcccatttagtgatattttactgcaagggatattctcattcatttttttgcaaacaacagcctattcaaatgtttt--tcttcgtgtatcctttttgttgacgcttgggttatgttttccttatttaccagGATCGAGTTCCAGCAGATGGTGTGGTCAAGTCAGGTAGAAGCACCATTGATGAGTCAAGTTTCACAGGTGAACCATTGCCAGTGACAAAAGAGTCAGGG
                                                                           | ||| | | ||  |  | |||         |||    | |||| |  | |||||    |    ||| | ||   |||            |    || ||||||||| ||||||  |||||||||||||||||||| |  |||||| | || ||||| ||| | ||||| || ||  |||| ||    ||| | |   | 
---------------------------------------------------------------------------tgttcacttacaggtagtggcagtttcgcatctacgatagtgttgtgcttttcgtaggacagaattgct-acatgtggtactcacaagtgtgtcataacagGATCGAATTCCAGTTGATGGTGTGGTCAAGTCAGGAAAGAGCACCGTCGACGAGTCCAGTCTTACAGGAGAGCCCCTGCCTGTTTTGAAACAATTTAGA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttcgtgtatcctttttgttgacgcttgggttatgttttccttatttaccagGATCGAGTTCCAGCAGATGGTGTGGTCAAGTCAGGTAGAAGCACCATTGATGAGTCAAGTTTCACAGGTGAACCATTGCCAGTGACAAAAGAGTCAGGG
                   tgttgac  putative branch site (score: 3)
                                      ttttccttatttacc  putative PPT
                                 ttatgtttt  TA-rich tract