In order to understand the functions of HERC2 and effectively make use it, we cloned the HERC2 cDNA and gDNA sequence from sunflower and analyzed it by bioinformatics method. Expression pattern of HERC2 of sunflower was revealed under abiotic stresses. The CDS of HERC2 is 1 608 bp, encoding 535 amino acids. The predicted molecular weight is 131 kD, isoelectric point is 5.03. The HERC2 encoded protein is hydrophobic proteins, and it is cytoplasmic protein. The protein was localized in the Golgi apparatus. The protein has 5 RCC1 conserved domains. Phylogenetic analysis of amino acid sequence of E3 ubiquitin ligase was close to Tarenaya hassleriana, was far with Glycine max and Glycine soja. Gene accession number is KT832066. The ORF of gDNA of HERC2 is 3 409 bp, which have 5 exons and 4 introns. Gene accession number is KT832067. RTqPCR showed that HERC2 has different expression characteristics under different abiotic stresses. The expression characteristics also exist in different organs.