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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgagaactactaaaccatatgagcaacaagttgacatttttcaaggcttcagtgatcatgtgaacctgtctgttttggatttagGTATCTTCTAAGCATGTTCTTCCTGTTCCAAGACCAGATCCAGAAGTTGTTGCCATGCTTACCTCGGGATTAACTGCATTAATCGCCCTTGAAAAG

Basic information

species Arabidopsis thaliana
transcript AT1G49670.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G49670.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os09g28570.3 (Oryza sativa), 3'ss of exon 10
------------------gtatgagaactactaaaccat--atgagcaaca----------agttgacatttttcaaggct------tcagtg-atcatgtgaacctgtctgttttggattta-gGTATCTTCTAAGCATGTTCTTCCTGTTCCAAGACCAGATCCAGAAGTTGTTGCCATGCTTACCTCGGGATTAACTGCATTAATCGCCCTTGAAAAG
                   | ||  |   ||||||  |   |||| |  ||          | | ||   ||| ||           |||||  | | | |||   |   | |||  |||| | |||  |  | |||||| ||||||| || ||||||||||||||||| || ||||| ||||| || || ||||| ||||| | ||| |||||||| |||
gtattacattctatgcatctgtgttacacactaaattaccaatgaccttcaccactccttcaatggatcatttccagcatccatctatcagttcaccttttgactttacatctttatgattaaagGTTCCAGCCAAGCATCTTCTTCCGGTGCCAAGACCAGATCCAGAGGTCGTTGCTATGCTAACATCAGGATTGACTGCTTCAATTGCCCTTGAGAAG

upper sequence: AT1G49670.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G368058_T01 (Zea mays), 3'ss of exon 5
---------gtatgagaactactaaaccatatgagcaacaagttgacatttttcaaggcttcagtg-atcatgtgaacctgtctgttt---tggatttagGTATCTTCTAAGCATGTTCTTCCTGTTCCAAGACCAGATCCAGAAGTTGTTGCCATGCTTACCTCGGGATTAACTGCATTAATCGCCCTTGAAAAG
           ||||||  | ||  | | | |         |    |||| ||   | |   |    ||  | |     | | | | |   ||   | || | ||  | ||   | || |||| || ||||||||||| ||||| || ||||| ||||| || || ||||| |||||||  ||||| |||||||||
tcctccgtcaaatgagattttctctaacctcttgcattttgggcaccattatttctgacaataacatatttttttgctttatatatctttctgatgtaagATTTCAGCCAAAAGTCTTATTCCAGTGCCAAGACCAGACCCAGAGGTGGTTGCTATGCTAACATCAGGATTGACTGCATCCATCGCTCTTGAAAAG

upper sequence: AT1G49670.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA02G15070.1 (Glycine max), 3'ss of exon 10
------------------------------------------------------------------------------------------------gtatgagaacta--ctaaacc-atatgagcaacaagttgacatttttcaaggcttcagtgatcatgtgaacctgtctgttttggatttagGTATCTTCTAAGCATGTTCTTCCTGTTCCAAGACCAGATCCAGAAGTTGTTGCCATGCTTACCTCGGGATTAACTGCATTAATCGCCCTTGAAAAG
                                                                                                || ||   | ||   | | |  |||     |    | ||| |||| | | |   | ||| ||         ||   |  || ||||  || |  |||| || |||| |||||| || || ||||||||||| |||||||||||||||||||| |||||||| ||||| | ||| || || ||||||
gtgggcagtgcttaagataatgttttatatttttcctttcatattaatgacttaattattggagtttccatgtaccacttatttagaaaaccatgtgtttggttattaagttgatctgataatgatactgtgatgatatttattatgatgtaagttattgaagctgtcttgttacttgggat--agATTCCTTCAAAACATGCTCTTCCGGTGCCTAGACCAGATCCTGAAGTTGTTGCCATGCTTACATCGGGATTGACTGCCTCAATTGCTCTAGAAAAG

upper sequence: AT1G49670.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv03s0063g00610.t01 (Vitis vinifera), 3'ss of exon 10
-----------------------------------------------------------------------------------gtatgagaactactaaaccatatgagcaacaagttgacatttttcaaggcttcagtgatcat-gtgaacctgtctgttttggat-ttagGTATCTTCTAAGCATGTTCTTCCTGTTCCAAGACCAGATCCAGAAGTTGTTGCCATGCTTACCTCGGGATTAACTGCATTAATCGCCCTTGAAAAG
                                                                                     || | || |     |  |  | ||  ||   |  | | | || |    |  | |  ||   ||  |||  | | ||||| || ||||||  |||| |||||  | ||||| ||  ||||||||||||||||||||||||| ||||| ||||| ||| | || |||| ||| ||  | ||||||
gtatactaccttaatatttttgcttttaatgttctacagggttggtgtcattattttgtttattttttaattcaattgctacttgatcataattttgttaataattaagttacctatcaaaaatgttaataattaaatttgtcggagttgaccccttttttttgcatgttagGTTCCTTCCAAGCACATCCTTCCCGTGGCAAGACCAGATCCAGAAGTTGTTGCGATGCTAACCTCAGGACTTACAGCATCAATTGCTTTAGAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgacatttttcaaggcttcagtgatcatgtgaacctgtctgttttggatttagGTATCTTCTAAGCATGTTCTTCCTGTTCCAAGACCAGATCCAGAAGTTGTTGCCATGCTTACCTCGGGATTAACTGCATTAATCGCCCTTGAAAAG
 agttgac  putative branch site (score: 4)
                                       tctgtttt  putative PPT
      atttttcaa  TA-rich tract