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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtatcatatatttcttaaggctctccaacaattcttggtttcttggtgttgaacactaacatggggtgcttgcttctttttagGGCTTTCAAGCGGCTGTATCTGCAGGTGCAAAGGAAGTTGCAATCTTTGCATCGGCTTCTGAGTCATTCTCCTTGTCAAATATTAACTGTACCATCGAAG

Basic information

species Arabidopsis thaliana
transcript AT2G26800.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G26800.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os01g16350.1 (Oryza sativa), 3'ss of exon 4
gtctgtatcatatatttcttaaggctctccaaca---attcttggtttcttggtgttgaacactaacatggggtgcttgcttctttttagGGCTTTCAAGCGGCTGTATCTGCAGGTGCAAAGGAAGTTGCAATCTTTGCATCGGCTTCTGAGTCATTCTCCTTGTCAAATATTAACTGTACCATCGAAG
     ||| || |  |||  |   || |  |  |   ||   || || | | || |   ||| | |       || | | |  |  | |||| ||| | || |||||  | ||||||||||| ||||||||| | ||||| || ||||||||  |||| |||  |||||| || |||||||||||  |||
-gtaatataatttgattcagataacttttgagtacatatgtctgtttacctcgtttc--acatttattc----tgttcgttggtaatcagGGATTTGAGGCAGCTGTTGCAGCAGGTGCAAAAGAAGTTGCAGTATTTGCGTCAGCTTCTGAAGCATTTTCCAAGTCAAACATAAACTGTACCATTAAAG

upper sequence: AT2G26800.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv06s0009g02640.t01 (Vitis vinifera), 3'ss of exon 4
gtctgtatcatatatttcttaaggctctccaacaattcttggtttcttggtgttgaacactaacatggggtgcttgcttct---------ttttagGGCTTTCAAGCGGCTGTATCTGCAGGTGCAAAGGAAGTTGCAATCTTTGCATCGGCTTCTGAGTCATTCTCCTTGTCAAATATTAACTGTACCATCGAAG
   ||  | || | ||||   |        || ||   |  |||    |   ||        |  || ||   || ||  |         || ||||| ||| |||| ||| |  | || ||||| ||||||||||| |||||||| || ||||||||||| || ||   |||||| || || ||||  || ||||
--gtgagtaat-tgtttccagaaaaaggggaaaaaccatgagttcaaagcaattctgtctgtatgtgagggaatttctcatatcaactacttgtagGGATTTGAAGCAGCTATTGCAGCTGGTGCTAAGGAAGTTGCCATCTTTGCTTCAGCTTCTGAGTCCTTTTCAAAGTCAAACATCAATTGTAGTATTGAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caattcttggtttcttggtgttgaacactaacatggggtgcttgcttctttttagGGCTTTCAAGCGGCTGTATCTGCAGGTGCAAAGGAAGTTGCAATCTTTGCATCGGCTTCTGAGTCATTCTCCTTGTCAAATATTAACTGTACCATCGAAG
                         cactaac  putative branch site (score: 1)
                                      tgcttgcttcttttt  putative PPT
                                             ttcttttta  TA-rich tract