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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttgattaatagtgtctaaatctggtttcactatatctgaagtcaactgttcatacgtttatgcatatttgttaatttcatttttctcacgattcagGCTTCTGAATCCAAGCACATTTGCGGGTTGGTTTGGCCGATCCCTTTTCCAC

Basic information

species Arabidopsis thaliana
transcript AT5G44240.2
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: LOC_Os11g25980.2 (Oryza sativa), 3'ss of exon 22
gtatgcttgattaatagtgtctaaatctggtttcactatatctgaagtcaactgttcatacgtttatgcatatttgttaatttcatttttctcacgattcagGCTTCTGAATCCAAGCACATTTGCGGGTTGGTTTGGCCGATCCCTTTTCCAC
 |     |  |  ||   ||||  | || || | || | |     | |  |   |   ||  || |    |  ||| | |  | |||  |  |    | ||||||| | |||||||| |||||||| ||||||||||| |||||  | |  || 
-ttcatattgtatatgtggtctgtaacttgtattaccagaaaattacttgaagctctttatattcagttttggttgctcaactaattcatgccttt-tacagGCTTTTAAATCCAAGTACATTTGCTGGTTGGTTTGGTCGATCATTGTATCAT

upper sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: EFJ13671 (Selaginella moellendorffii), 3'ss of exon 20
gtatgcttgattaatagtgtctaaatctggtttcactatatctgaagtcaactgttcatacgtttatgcatatttgttaatttcatttttctcacgattcagGCTTCTGAATCCAAGCACATTTGCGGGTTGGTTTGGCCGATCCCTTTTCCAC
                                                       | |  |  |      |   | | | | ||| |    |   | ||||||||| | ||||| ||||||||||| || |||||||||||  | ||||| |||
------------------------------------------------------gtaaggcagtggca-gtggctctcattgtcaataacttgtagtttcagGCTTTTAAATCCCAGCACATTTGCTGGCTGGTTTGGCCGGGCACTTTTTCAC

upper sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: EFJ28965 (Selaginella moellendorffii), 3'ss of exon 20
gtatgcttgattaatagtgtctaaatctggtttcactatatctgaagtcaactgttcatacgtttatgcatatttgttaatttcatttttctcacgattcagGCTTCTGAATCCAAGCACATTTGCGGGTTGGTTTGGCCGATCCCTTTTCCAC
                                                       | |  | ||   |  |   | | | | ||| |    |   | ||||||||| | ||||| ||||||||||| || |||||||||||  | ||||| |||
------------------------------------------------------gtaaggcattggcg-gtggctctcattgtcaataacttgtagtttcagGCTTTTAAATCCCAGCACATTTGCTGGCTGGTTTGGCCGGGCACTTTTTCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaactgttcatacgtttatgcatatttgttaatttcatttttctcacgattcagGCTTCTGAATCCAAGCACATTTGCGGGTTGGTTTGGCCGATCCCTTTTCCAC
                                         ttctcac  putative branch site (score: 2)
                                 tttcatttttctcac  CT-rich tract
               tttatgcatatttgtt  TA-rich tract