Many intracellular membranes contain ion channels, although their physiological roles are often poorly understood. in this study we incorporated single anion channels colocalized with rat brain endoplasmic reticulum (ER) ryanodine-sensitive Ca2+-release channels into planar lipid bilayers. The channels opened in bursts, with more activity at negative (cytoplasm-ER lumen) membrane potentials, and they occupied four open conductance levels with frequencies well described by the binomial equation. The probability of a protomer being open decreased from similar to 0.7 at -40 mV to similar to 0.2 at +40 mV, and the channels selected between different anions in the order P-SCN > P-NO3 > P-Br > P-CI > P-F. They were also permeant to cations, including the large cation Tris(+) (P-Tris/P-CI = 0.16). Their conductance saturated at 170 pS in choline Cl. The channels were inactivated by 15 mu M 4,4'-diisothiocyanatostilbene-2,2'-disultonic acid (DIDS) and blocked with low affinity (K-D of 1-100 mu M) by anthracene-9-carboxylic acid, ethacrynic acid, frusemide (furosemide), HEPES, the indanyloxyacetic acid derivative IAA-94, 5-nitro-2-(3-phenylpropylamino)-benzoate (NPPB), and Zn2+. Unlike protein translocation pores, the channels were unaffected by high salt concentrations or puromycin. They may regulate ER Ca2+ release, or be channel components en route to their final cellular destinations. Alternatively, they may contribute to the fusion machinery involved in intracellular membrane trafficking.