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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcactaacatattctctctgctcagctaaaagtgaatttgaccatttgaagaggctttggtccataactttctgtcttttatgacattgacagGTCGAAATAGACGTGGAGAGTTTTGTGCAGTCTTTCAGACCTGATATAATGGAGGCGGTGTATGCTTGGGCAAAAGGGTCCAAATTCTATGAGGTCATGG

Basic information

species Arabidopsis thaliana
transcript AT1G59760.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G59760.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os12g18140.1 (Oryza sativa), 3'ss of exon 13
------------------------------gtattcactaacatattctctctgctcagctaaaagtgaatttgaccatttgaagaggctttggtccataactttctgtctt--ttatgacattgacagGTCGAAATAGACGTGGAGAGTTTTGTGCAGTCTTTCAGACCTGATATAATGGAGGCGGTGTATGCTTGGGCAAAAGGGTCCAAATTCTATGAGGTCATGG
                               | ||   | | ||| |   | |    |||||   ||| | |||  |       |   |||    |   |||    |||  |  |  || |  |||||| || |||| |||||||||||||||||| | |||||| | |||||||||||||| ||||||||| | ||||| ||||| |||||||||||| |  ||||||
gtaattgatataactaagccatcatatggattgtttgttgatataattgttataa--agctag--gtggacttgctccagaattgtatcttaatgctgaaacaaaatgttctcgtcttgccgatgacagATCCAAATTGACGTGGAGAGTTTTGTGAACTCTTTCCGGCCTGATATAATGGAAGCGGTGTATTCATGGGCCAAAGGATCCAAATTCTATCAAATCATGG

upper sequence: AT1G59760.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA08G47700.1 (Glycine max), 3'ss of exon 13
-gtattcactaacatattctctctgctcagctaaaagtgaatttgaccatttgaagaggctttggtccataactttctgtct-----tttat-gacattgacagGTCGAAATAGACGTGGAGAGTTTTGTGCAGTCTTTCAGACCTGATATAATGGAGGCGGTGTATGCTTGGGCAAAAGGGTCCAAATTCTATGAGGTCATGG
 |  ||  ||| |   |  |  ||  | ||       |  |||| |   ||  |  | ||||||    ||   ||| | | |     ||||   | |   |||||| ||||| ||||| |||||||||||  |||| || || ||||| || |||||||| |||||||||||||| ||||| || || ||||||||| ||||||
agagtttgctatc---tcgtagctttttaga-gtgtcttcattttatagttgtacaatgctttgacgaattcttttttctttgatcatttaccaaaaaaaacagGTGGAAATTGACGTTGAGAGTTTTGTTAAGTCGTTTAGGCCTGACATTATGGAGGCTGTGTATGCTTGGGCGAAAGGTTCAAAGTTCTATGAGATCATGG

upper sequence: AT1G59760.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv06s0009g01750.t01 (Vitis vinifera), 3'ss of exon 13
-gtattcactaacatattctctctgctcagctaaaagtgaatttgaccatttgaa-gaggctttggtccataactttc--tgtcttttatgacattgacagGTCGAAATAGACGTGGAGAGTTTTGTGCAGTCTTTCAGACCTGATATAATGGAGGCGGTGTATGCTTGGGCAAAAGGGTCCAAATTCTATGAGGTCATGG
   |||     || |  |||  |   | |      |     ||| ||  |   |  ||   | |  | |||   |||   | |  ||| ||       |||||| |||| || |||||||| |||||| | |||||| | |||||||| |||||||| ||| |||||||||| |||||||||||||||||| || | ||||
tacatttctggac-tggtcttgcaaataaaggcttatcatcttttactctccaactgactatctttttcatcctttttattattatttttgtatacctcagGTCCAAATTGATGTGGAGAGCTTTGTGAATTCTTTCCGGCCTGATATCATGGAGGCTGTGCATGCTTGGGCCAAAGGGTCCAAATTCTATCAGATTATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaccatttgaagaggctttggtccataactttctgtcttttatgacattgacagGTCGAAATAGACGTGGAGAGTTTTGTGCAGTCTTTCAGACCTGATATAATGGAGGCGGTGTATGCTTGGGCAAAAGGGTCCAAATTCTATGAGGTCATGG
                       ccataac  putative branch site (score: 3)
                         ataacttt  TA-rich tract