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In contrast, the Jmjd6 tm 1 Gbf allele ablates only the expression of Jmjd6.
This was further supported by semiquantitative expression analysis of 1110005A03Rik in Jmjd6 tm 1 Gbf -/- embryos and primary fetal liver-derived macrophage cultures.
RT-PCR analysis of serial diluted cDNA shows equal expression of 1110005A03Rik in Jmjd6 tm 1 Gbf animals in comparison to wildtype controls in all analysed samples [see Figure C in Additional file 3].
Thus, the Jmjd6 tm 1 Flv and Jmjd6 tm 1 Ysfk alleles represent double knockouts of the Jmjd6 and 1110005A03Rik genes, while the Jmjd6 tm 1 Gbf allele ablates only Jmjd6 gene expression.
Furthermore, a comprehensive analysis carried out by us in Ptdsr-knockout mice demonstrated no impairment in the removal of apoptotic cells in Ptdsr-deficient embryos and macrophages ([ 54] for Ptdsr tm 1 Gbf ) thereby contradicting two previous studies that reported defects in apoptotic cell clearance in two other Ptdsr-knockout mice ([ 62] for Ptdsr tm 1 Flv, and [ 63] for Ptdsr tm 1 Ysfk ).
In all three Jmjd6 mutant mice (Jmjd6 tm 1 Flv, generated by the Flavell laboratory; Jmjd6 tm 1 Ysfk, generated by the Fukui laboratory; and Jmjd6 tm 1 Gbf, generated in our laboratory) the first two or three exons of the gene have been deleted.
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Five double stranded oligonucleotide probes were made: DREB 5'tgactaCCGAcatgagttcc3', ABF 5'ccttgtccacGTGTatcatc3', DOF 5'atcttatatAAAGcaccatt3', and GBF 5'cttgtccACGTGtatcatca3'.
Furthermore, the rest of the binding motifs other than GRE include FOXP1, STE11, HFH4, FOX, FOXD3, UF1H3beta, BR-C, ZNF219, E4BP4, C/EBP, HNF3alpha (aka FOXA1), CAC-binding, AtMYB-84, GBF, PAX-4, MAZR, KROX, NKX6.1 and PXR (Fig. 2B).
Dicot rbcS G-boxes interact with the HY5 GBF, which mediates phytochrome and cryptochrome signals in concert with COP and DET regulators [ 31, 35].
CYH: cytohesins/ARNO; EFA: Exchange Factor for Arf6; FBS: F-Box/Sec7; TBS: TBC/Sec7; GBF: Golgi-associated BFA-resistant guanine nucleotide exchange Factor; BIG: BFA-Inhibited Guanine nucleotide exchange factor; GBG: GBF/BIG Gefs; SYT1: Suppressor of ypt.
(GBF 10511 kb) Additional file 4: Materials and Methods.
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