Fig. 6

HERV-K(HML-2) Rec and Np9 proteins potentially encoded by transcribed HML-2 loci. Respective amino acid sequences are aligned for (a) Rec and (c) Np9 proteins. Amino acid differences between sequences are highlighted. Previously described domains interacting with other cellular proteins are indicated (see, for instance, ref. [12], and references therein). The chimeric Rec/Np9/Env-like protein potentially encoded by HERV-K111 and the “Venter locus” is depicted in more detail in Fig. 7. b A shortened Rec-like protein potentially encoded by alternative np9-like splicing of transcripts from HERV-K(HML-2) type 2 locus chr3q21.2_K-4 is compared separately to the Rec protein sequence as encoded by HML-2 locus chr7p22.1_K-6. Note that transcripts from the potentially Rec-encoding locus chr3q21.2_K-4 were identified at an average relative frequency of 10.3% for the gag amplicon and less frequently for the rec/np9 and env amplicons. Also note that transcripts from the potentially Np9-encoding locus chr3q12.3_K-5 were identified at relative average frequencies of 55% for the gag, rec/np9, and env amplicons (see the text and Tables 1–3)