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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattacttaaacgcaactcttgtccgggaaaccatgttttgttttatgctatattcccccactaatgcgtttatgaatctttataagGAATGTAATCCAAGACTTTCAACATTTGGGTTAATGAAGAATAGTCGGGATGGGAAAAGTTATAGCACAAATCTTGCTTTTACCCCACCTGAGTATCTAC

Basic information

species Arabidopsis thaliana
transcript AT1G01740.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G01740.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G07850.2 (Glycine max), 3'ss of exon 5
gtaattacttaaacgcaactcttgtccgggaaaccatgttttgttttatgctata-ttcccccactaatgcgtttatgaatctttataagGAATGTAATCCAAGACTTTCAACATTTGGGTTAATGAAGAATAGTCGGGATGGGAAAAGTTATAGCACAAATCTTGCTTTTACCCCACCTGAGTATCTAC
              | || | || |  |     || | || |   |    | ||| ||     | |||    | | | |   |||   ||||  ||||||| || |||||||  |||||  | ||||| |||||  |||||||||||||||||||||||||| | || |||||||| || ||||||||  
--------------gtaagtttt-tgtgtatcccctttttatacatgtcccaataattagattaataaaaaatgtgttagaattttgcagGATGGTAATCCTAGGCTTTCAAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTTA

upper sequence: AT1G01740.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 5
gtaattacttaaacgcaactcttgtccgggaaaccatgttttgttttatgctatattcccccactaatgcgtttatgaatctttataagGAATGTAATCCAAGACTTTCAACATTTGGGTTAATGAAGAATAGTCGGGATGGGAAAAGTTATAGCACAAATCTTGCTTTTACCCCACCTGAGTATCTAC
|||| |  ||    | | | | | |          |  | |   | ||   || |||     |  |||| |||   |||| ||    ||||  ||||||| || ||||| |  |||||  | ||||| |||||  |||||||||||||||||||||||||| | || |||||||| || ||||||||  
gtaagtttttg--tgtatccccttttta------tacatgtccctata-attagattaataaaaaaatgtgtta--gaattttgc--agGATGGTAATCCTAGGCTTTCGAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTCA

upper sequence: AT1G01740.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 5
gtaattacttaaacgcaactcttgtccgggaaaccatgtt--ttgttttatgctatattcccccactaatgcgtttatgaatctttataagGAATGTAATCCAAGACTTTCAACATTTGGGTTAATGAAGAATAGTCGGGATGGGAAAAGTTATAGCACAAATCTTGCTTTTACCCCACCTGAGTATCTAC
|||| || ||   |    |  |      |||| || | ||  |||||  || |||||| |   |    ||   | ||  |   |||   ||||  ||||||| ||||| ||    |||||  | ||||| |||||| ||||||| ||||||||||| || ||||| || ||||| || ||||||||| |  
gtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttgcagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgttttgttttatgctatattcccccactaatgcgtttatgaatctttataagGAATGTAATCCAAGACTTTCAACATTTGGGTTAATGAAGAATAGTCGGGATGGGAAAAGTTATAGCACAAATCTTGCTTTTACCCCACCTGAGTATCTAC
                           cactaat  putative branch site (score: 2)
                                             tctttat  putative PPT
                                     tttatgaatctttata  TA-rich tract