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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcaagtttcagtccttaattgcacttaccatcaactttaatcccaatcaattttatggtatttgaccaacattatttcttttatgcctcagATATTGCGGAAGCTCAAGCATGAGAATATCATTGAAATGCTCGACTCCTTTGAAAACGCACGAGAGTTCTGTGTCGTCACTGAGTTTGCCCAA

Basic information

species Arabidopsis thaliana
transcript AT1G50240.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G50240.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv16s0039g02400.t01 (Vitis vinifera), 3'ss of exon 2
gttagcaagtttcagtccttaattgcacttaccatcaactttaat------cccaatcaattttatggt-atttgaccaacattatttcttttatgcctcagATATTGCGGAAGCTCAAGCATGAGAATATCATTGAAATGCTCGACTCCTTTGAAAACGCACGAGAGTTCTGTGTCGTCACTGAGTTTGCCCAA
| ||    ||        ||| ||| | || ||| ||  | ||||         |||   ||||  | | ||||||  ||   | | |||   |||   ||||| ||| ||||||| || ||||| ||||||||||||||||||||||||||||| | | | | ||||||||| || ||||| || ||||| |||
gataaagtgtaatcagttttatttgaaatt-ccaacacttctaatgaattttttaattgtttttcagatgatttgatgaatggtttatctaa-atgttgcagATTTTGAGGAAGCTGAAACATGAAAATATCATTGAAATGCTCGACTCCTTTGAGACCCCTCAAGAGTTCTGCGTTGTCACAGAATTTGCACAA

upper sequence: AT1G50240.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S72_260V6.1 (Physcomitrella patens), 3'ss of exon 2
gttagcaagtttcagtccttaattgcacttaccatcaactttaatcccaatcaattttatggtatttgaccaacattatttcttttatgcct---cagATATTGCGGAAGCTCAAGCATGAGAATATCATTGAAATGCTCGACTCCTTTGAAAACGCACGAGAGTTCTGTGTCGTCACTGAGTTTGCCCAA
   |  || |   | |  ||   ||   ||    | ||  || |     |     || |    |||||  |||  |  |   |   ||| ||   || ||||||| | | || ||||||||||||||||| |||||||||||  | |||||||  |  |  ||||| ||||| || || ||| ||      
--catgaaatcatattgttttcatgagtttg---tgaatattcacatggaggggcttga-aacatttg-tcaatttgttaagtgccatgtctttccaaatattgcagCAACTTAAGCATGAGAATATCATAGAAATGCTCGATGCTTTTGAAAGTGACCAGGAGTTTTGTGTAGTGACCGAGATT------

upper sequence: AT1G50240.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 2
gttagcaagttt-cagtccttaattgcacttaccatcaactt-taatcccaa--tcaattttatggtatttgaccaacattatttcttttatgcctc-agATATTGCGGAAGCTCAAGCATGAGAATATCATTGAAATGCTCGACTCCTTTGAAAACGCACGAGAGTTCTGTGTCGTCACTGAGTTTGCCCAA
 ||  | | | |  | || |  | |     |    | ||    |||||  ||       ||| |  || |||     | |||  |    | |  ||| ||||||||||| |  | |||||||||||||||||||||||||| ||  ||||||||| | | |  ||||||||||| || ||||||||||| || 
tttcacgattatgtaatcatgtagtttttatgtgttaaagaaataatcaaaagacgggatttgtaatacttgcaattcgttaagtaccatgtctctccagATATTGCGGCAATTAAAGCATGAGAATATCATTGAAATGCTTGATGCCTTTGAAAGCCCCCAGGAGTTCTGTGTTGTGACTGAGTTTGCTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatcccaatcaattttatggtatttgaccaacattatttcttttatgcctcagATATTGCGGAAGCTCAAGCATGAGAATATCATTGAAATGCTCGACTCCTTTGAAAACGCACGAGAGTTCTGTGTCGTCACTGAGTTTGCCCAA
                       atttgac  putative branch site (score: 4)
                                      tttcttttatgcctc  putative PPT
                               aacattatttctttta  TA-rich tract