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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctcttcttacttgggttttgttccttagcgggtttagcttttcttttctctgtgcaatgacactgttgtgatcttcttgacaattgttttactgcagTATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAG

Basic information

species Arabidopsis thaliana
transcript AT3G07160.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 1
gtaagctcttcttacttgggttttgttccttagcgggtttagcttttcttttctctgtgcaatgacac-tgttgtg-atcttcttgacaattgttttactgcagTATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAG
   |   | | || ||||    ||  |   ||     |||  |        ||     |  |||| || | ||||   |  |  | |   || |||   |||||||||||||||||  || ||| |  | |||||| | |||||||| ||||||||| ||||||||||||| ||||| ||||| ||||||||||| || |||
--gaaaacatttttcttgaaaattcatatatat--actttgaccaacaagctcctatagacatgatacctattgtttgttctaataattcttatttgtttgcagTATGTGAGCATGCATATTCATTATCTCAAAATTTGGATCCTAACAGTGAAGGCCGAGGTGTTTTACAATTCAAGACTGGTTTGATGTCTGTCATCAAG

upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA10G44150.1 (Glycine max), 3'ss of exon 1
---gtaagctcttcttacttgggttttgttccttagcgggtttagcttttcttttctctgtgcaatgacactgttgtgatcttcttgacaattgttttactgcagTATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAG
    |     | | || ||||       |||||         | |     |      || |  |     | ||||    |  |  | |   || |||   |||||||||||||||||  || ||| |  | |||||| | || || || ||||||||| |||||||||| || ||||| ||||| ||||||||||| || |||
cctttggaaacatttttcttgaaa---attcctatatatacgttgaccaacaaacacctatagatacgtattgttt--gttctaataattcttatttgtttgcagTATGTGAGCATGCATATTCATTATCTCAAAATTTGGACCCCAACAGTGAAGGCCGAGGTGTTTTGCAATTCAAGACTGGTTTGATGTCTGTCATCAAG

upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 2
gtaagctcttcttacttgggttttgttccttagcgggtttagcttttcttttctctgtgcaatg--acactgttgtgatcttcttgacaatt----gttttactgcagTATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAG
     || ||  |  |         ||  |   |   ||||   | | |||  |  ||||| |   | |   || | |  || || |   ||    | || | ||||||||||||||||| ||| ||| |  | |||||||| |||||||||||||| || |||||||| ||||||||||| ||||| || |||||||| || |||
-----ctgtttctgataaaaaaacattattgcacaaattta---tatgtttaatgagtgcatttctatatatttttaaagtttttaatcttttgctggttcattgcagTATGTGAGCATGCTTATTCATTGTCTCAAAATCTGGATCCTAATAGTGAGGGAAGAGGTGTATTACAGTTCAAGACTGGTTTAATGTCTGTAATCAAG

upper sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S67_234V6.1 (Physcomitrella patens), 3'ss of exon 1
gtaagctcttcttacttgggttttgttccttagcgggtttagcttttcttttctctgtgcaatgac--actgttgtgatcttcttgacaattgttttact-gcagTATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAG
       | | | ||||      ||      |  |  | |   | |||       |   |||   |  |  |||   |     || | | |||   | |  ||||| || ||| | |  ||| | || |||||| |||| ||||| ||||||||||||||||| ||||| || ||||| || || ||| |||| || ||||||
-----accctttcactttctgcctgcggtcgaatgaatgttcttcttcacccaattaaccaaaagctaatggtttctacgcgtttaaaatttgaaattcgagcagTGTGCGAGTACGCGTACACGCTGGCACAAGATCTGGATCCGAATAGTGAAGGCAGAGGCGTTTTGCAATTCAAGACGGGTTTGTTGTCCGTCATTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttctctgtgcaatgacactgttgtgatcttcttgacaattgttttactgcagTATGTGAGCATGGTTACTCACTTGCACAAAATCTCGATCCTAATAGTGAAGGCAGAGGTGTTTTACAGTTCAAAACTGGATTGATGTCTGTTATTAAG
                                tcttgac  putative branch site (score: 3)
                                         ttgtttt  putative PPT
                                       aattgtttta  TA-rich tract